Software-old: Difference between revisions

Revision as of 10:45, 19 October 2018

Below is a partial list of software packages installed on Sapelo, Sapelo2, Teaching (we are in the process of adding wiki pages for more applications). To view a list of all modules installed on Sapelo2/Teaching, along with a short description, please run the following command on Sapelo2/Teaching:

module spider

You can also use the command above to search for a specific application. For more information, please see Lmod.

Installed Software List

Last updated 2018-10-19. Note: Click on the icons to the right of the column headings to sort the table. 0-9 A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

Name	Version	Category	Cluster
4p	1.0	Bioinformatics	Sapelo
4p	1.0	Bioinformatics	Sapelo2
ABySS	2.0.2	Bioinformatics	Sapelo
ABySS	1.9.0, 2.0.2, 2.1.0	Bioinformatics	Sapelo2
ADMIXTURE	1.3.0	Bioinformatics	Sapelo2
aeneas	1.7.3	Other	Sapelo
aeneas	1.7.3	Other	Sapelo2
AFNI	17.3.05	Other	Sapelo2
AGE	0.4	Bioinformatics	Sapelo
AlignGraph	20180709	Bioinformatics	Sapelo2
AlleleSeq_pipeline	1.2a	Bioinformatics	Sapelo2
Allim	1.2	Bioinformatics	Sapelo2
Allmaps	0.6.6	Bioinformatics	Sapelo
AMBER	14	Chemistry	Sapelo
AMBER	14	Chemistry	Sapelo2
amos	3.1.0	Bioinformatics	Sapelo
AMOS	3.1.0	Bioinformatics	Sapelo2
Anaconda2	4.2.0, 4.3.0, 4.4.0	Programming	Sapelo
Anaconda2	5.0.1	Programming	Sapelo2
Anaconda3	4.2.0, 4.3.0, 5.0.0	Programming	Sapelo
Anaconda3	5.0.1	Programming	Sapelo2
Anaconda	2.2.0, 2.5.0, 3-2.2.0, 2-4.1.1	Programming	Sapelo
ANI	2.0	Bioinformatics	Sapelo
ANNOgesic	0.6.17	Bioinformatics	Sapelo
annovar	2017Jul16	Bioinformatics	sapelo2
ANSYS	16.2	Engineering	Sapelo
anvi'o	4, 5.1	Bioinformatics	sapelo2
apache-ant	1.9.6	Other	Sapelo
Aragorn	1.2.38	Bioinformatics	Sapelo2
ARC	1.1.4-beta	Bioinformatics	Sapelo
Arlequin	3.5.2.2	Bioinformatics	Sapelo2
ART	20160605	Bioinformatics	Sapelo
ART	20160605	Bioinformatics	Sapelo2
Artemis	17.0.1	Bioinformatics	Sapelo2
Artemis	17.0.1	Bioinformatics	Teaching
AStalavista	3.2	Bioinformatics	Sapelo
ASTRAL	5.6.1	Bioinformatics	Sapelo2
ATk	2.22.0	Other	Sapelo2
ATLAS	3.10.2	Other	Sapelo2
augustus	3.2.3	Bioinformatics	Sapelo
AUGUSTUS	3.2.3	Bioinformatics	Sapelo2
AUGUSTUS	3.2.3	Bioinformatics	Teaching
BAGEL	2016.12.14, 2017.02.13	Chemistry	Sapelo
BaitsTools	1.0	Bioinformatics	Sapelo
bam-readcount	0.8.0	Bioinformatics	Sapelo
Bamtools	2.4.0	Bioinformatics	Sapelo
BamTools	2.4.1	Bioinformatics	Sapelo2
Barrnap	0.9	Bioinformatics	Sapelo2
basespace-cli	0.8.10	Bioinformatics	Sapelo
basespace-cli	0.9.17	Bioinformatics	Sapelo2
BayesAss	3.0.4	Bioinformatics	Sapelo2
Bazel	0.4.5	Other	Sapelo
Bazel	0.8.1, 0.11.1	Other	Sapelo2
BBMap	35.82	Bioinformatics	Sapelo
BBMap	37.67	Bioinformatics	Sapelo2
bcftools	1.6	Bioinformatics	Sapelo
BCFtools	1.1, 1.3.1, 1.6, 1.8, 1.9	Bioinformatics	Sapelo2
BCFtools	1.3.1, 1.6, 1.8	Bioinformatics	Teaching
bcl2fastq	2.17.1.14	Bioinformatics	Sapelo
bcl2fastq	2.20.0	Bioinformatics	Sapelo2
BEAST	2.4.1	Bioinformatics	Sapelo
Beast	1.8.4, 1.10.1, 2.4.8pre, 2.4.8, 2.5.0	Bioinformatics	Sapelo2
BEDops	2.4.14	Bioinformatics	Sapelo
BEDOPS	2.4.30	Bioinformatics	Sapelo2
BEDTools	2.24.0, 2.25.0 2.26.0	Bioinformatics	Sapelo
BEDTools	2.26.0	Bioinformatics	Sapelo2
BEDTools	2.26.0	Bioinformatics	Teaching
BEST	2.3.1	Bioinformatics	Sapelo
BiBench	0.2	Bioinformatics	Sapelo
bioawk	1.0	Bioinformatics	Sapelo
bioawk	1.0	Bioinformatics	Sapelo2
BioKanga	21.0.0	Bioinformatics	Sapelo2
BionanoSolve	3.2.1-04122018, 3.2.2-08222018	Bioinformatics	Sapelo2
BioPerl	1.6.923	Bioinformatics	Sapelo
BioPerl	1.7.1	Bioinformatics	Sapelo2
BioPerl	1.7.1	Bioinformatics	Teaching
BioPython	1.66	Bioinformatics	Sapelo
BioPython	1.68	Bioinformatics	Sapelo2
Biopython	1.68	Bioinformatics	Teaching
Bismark	0.16.3	Bioinformatics	Sapelo
Bison	2.7, 3.0.2, 3.0.4	Other	Sapelo2
BLASR	2.2	Bioinformatics	Sapelo2
BLAST+	2.6.0, 2.7.1	Bioinformatics	Sapelo2
BLAST+	2.6.0	Bioinformatics	Teaching
BLAST	2.2.26	Bioinformatics	Sapelo2
BLAST	2.2.26	Bioinformatics	Teaching
Blat	36	Bioinformatics	Sapelo
BLAT	3.4, 3.5	Bioinformatics	Sapelo2
Blosc	1.12.1	Library	Sapelo2
Boost	1.47.0, 1.57.0, 1.59.0	Library	Sapelo
Boost	1.54.0, 1.61.0, 1.63.0, 1.65.1	Library	Sapelo2
Boto3	1.9.14	Other	Sapelo2
bowtie2	2.2.4	Bioinformatics	Sapelo
bowtie2	2.2.3, 2.3.3, 2.3.4.1	Bioinformatics	Sapelo2
Bowtie2	2.2.3, 2.3.3, 2.3.4.1	Bioinformatics	Teaching
bowtie	1.1.1	Bioinformatics	Sapelo
Bowtie	1.2.2	Bioinformatics	Sapelo2
BP&P	4.0	Bioinformatics	Sapelo
braker	2.0.5	Bioinformatics	Sapelo2
breakdancer	1.1.2_2013_03_08	Bioinformatics	Sapelo
BreakDancer	1.4.5-foss-2016b	Bioinformatics	Sapelo2
BS Seeker2	2.1.1	Bioinformatics	Sapelo
BS-Seeker2	2.1.5	Bioinformatics	Sapelo2
Burrows-Wheeler Aligner (BWA)	0.7.10, 0.7.15	Bioinformatics	Sapelo
BUSCO	3.0.2	Bioinformatics	Sapelo
BUSCO	2.0, 3.0.2	Bioinformatics	Sapelo2
BWA	0.7.15, 0.7.17	Bioinformatics	Sapelo2
BWA	0.7.17, 0.7.15	Bioinformatics	Teaching
Caffe	12.04.2015	Other	Sapelo
Caffe	04082018	Other	Sapelo2
Cairo	1.10.0	Bioinformatics	Sapelo
cairo	1.14.6, 1.14.10, 1.14.12	Bioinformatics	Sapelo2
canu	1.4	Bioinformatics	Sapelo
Canu	1.7, 1.7.1	Bioinformatics	Sapelo2
Canu	1.4, 1.5, 1.6, 1.7	Bioinformatics	Teaching
CAP-miRSeq	05/20184	Bioinformatics	Sapelo2
cap3	03/09/2015	Bioinformatics	Sapelo
CAP3	03092015	Bioinformatics	Sapelo2
CD-HIT	4.6.8	Bioinformatics	Sapelo2
cdhit	4.6.7	Bioinformatics	Sapelo
CDNA_Cupcake	3.9	Bioinformatics	Sapelo
CDNA_Cupcake	5.9	Bioinformatics	Sapelo2
CellProfiler	2.2.0	Bioinformatics	Sapelo
censor	4.2.29	Bioinformatics	Sapelo
CENSOR	4.2.29	Bioinformatics	Sapelo2
Centrifuge	2.3.2	Bioinformatics	Sapelo
CFITSIO	3.38	Library	Sapelo2
CFOUR	1.2, 2.00-beta	Chemistry	Sapelo
CGAL	4.11	Library	Sapelo2
CGAT	0.2.4	Bioinformatics	Sapelo
CGmapTools	0.0.3b	Bioinformatics	Sapelo
Cgmaptools	0.1.1	Bioinformatics	Sapelo2
Check	0.10.0	Programming	Sapelo
CheckM	1.0.5	Bioinformatics	Sapelo
Chimera	1.13	Bioinformatics	Sapelo2
Chromosomer	0.1.4a	Bioinformatics	Sapelo
Chromosomer	0.1.3, 0.1.4a0	Bioinformatics	Sapelo2
Chromosomer	0.1.4a	Bioinformatics	Teaching
CIRCexplorer2	2.2.3	Bioinformatics	Sapelo
circlator	1.4.1	Bioinformatics	Sapelo
circlator	1.5.3	Bioinformatics	Sapelo2
circos	0.69	Bioinformatics	Sapelo
Circos	0.69-6	Bioinformatics	Sapelo2
cisa	20140304	Bioinformatics	Sapelo
Cleaveland4	4.4	Bioinformatics	Sapelo
Cleaveland4	4.4	Bioinformatics	Sapelo2
Clustal-Omega	1.2.4	Bioinformatics	Sapelo2
ClustalW2	2.1	Bioinformatics	Sapelo2
ClustalW	1.83	Bioinformatics	Sapelo
clusteringConsensus	1.02	Bioinformatics	Sapelo
cmake	2.8.12.2, 3.0.2, 3.7.2, 3.9.3	Other	Sapelo
CMake	3.0.0, 3.4.3, 3.5.2, 3.6.1, 3.6.2, 3.7.2, 3.8.0, 3.9.1, 3.9.5, 3.10.2	Other	Sapelo2
cnv-seq	03132017	Bioinformatics	Sapelo
CNVnator	0.3.3	Bioinformatics	Sapelo
CNVnator	0.3.3	Bioinformatics	Sapelo2
Cogent	3.5	Bioinformatics	Sapelo2
Consed	29.0	Bioinformatics	Sapelo2
CONSEL	0.20	Bioinformatics	Sapelo
Conspred	v1.32	Bioinformatics	Sapelo
cortex_var	1.0.5.21	Bioinformatics	Sapelo
CPLEX	12.6.3	Engineering	Sapelo
CPLEX	12.6.3	Engineering	Sapelo2
crest	1.0	Bioinformatics	Sapelo2
CRISPResso	1.0.13	Bioinformatics	Sapelo2
Croco_tools	1.0	Other	Sapelo
CrossMap	0.2.5	Bioinformatics	Sapelo
CUDA	5.0.35, 6.5.14, 7.5.18, 8.0.61	Programming	Sapelo
CUDA	7.0.28, 7.5.18, 8.0.61, 8.0.61_375.26-GCC-5.4.0-2.26, 9.0.176, 9.1.85	Programming	Sapelo2
cuDNN	7.0.4, 7.2.1.38	Programming	Sapelo2
cufflinks	2.2.1	Bioinformatics	Sapelo
Cufflinks	2.2.1	Bioinformatics	Sapelo2
Cufflinks	2.2.1	Bioinformatics	Teaching
cURL	7.49.1	Other	Sapelo2
Cutadapt	1.14	Bioinformatics	Sapelo
cutadapt	1.9.1, 1.16	Bioinformatics	Sapelo2
cv2	3.3.0.10	Other	Sapelo
Cython	0.27.3, 0.28.5	Programming	Sapelo2
CythonGSL	0.2.2	Other	Sapelo2
CytoScape	3.3.0	Bioinformatics	Sapelo
Danpos2	2.2.2	Bioinformatics	Sapelo
Danpos2	2.2.2	Bioinformatics	Sapelo2
datamash	1.0.7	Other	Sapelo
DBG2OLC	20170208	Bioinformatics	Sapelo2
DBG2OLC	20170208	Bioinformatics	Teaching
ddocent	2.2.16	Bioinformatics	Sapelo
DDSCAT	7.3.2	Chemistry	Sapelo2
DeconSeq	0.4.3	Bioinformatics	Sapelo
deepnet	20151013	Other	Sapelo
deeptools	2.3.1	Bioinformatics	Sapelo
deepTools	3.0.2	Bioinformatics	Sapelo2
DeepVariant	0.7.0	Bioinformatics	Sapelo2
DeFCoM	1.0.1	Bioinformatics	Sapelo
DELLY	0.7.7	Bioinformatics	Sapelo
dendropy	3.12.0	Bioinformatics	Sapelo
DendroPy	4.3.0	Bioinformatics	Sapelo2
depict	140721	Bioinformatics	Sapelo
detect-NAHR	2015.09.16	Bioinformatics	Sapelo
detonate	1.11	Bioinformatics	Sapelo2
DIAMOND	0.8.36	Bioinformatics	Sapelo
DIAMOND	1.0	Bioinformatics	Sapelo2
DISCOVARdenovo	52488	Bioinformatics	Sapelo2
DLCpar	1.0	Bioinformatics	Sapelo
DLCpar	1.0	Bioinformatics	Sapelo2
Doxygen	1.8.7, 1.8.11, 1.8.13	Other	Sapelo2
DyNet	2.1	Other	Sapelo2
EggNOG-Mapper	1.0.3	Bioinformatics	Sapelo2
[[\|Eigen-Sapelo2\|Eigen]]	3.2.3, 3.3.5	Library	Sapelo2
EIGENSOFT	6.1.4	Bioinformatics	Sapelo2
EMBOSS	6.5.7	Bioinformatics	Sapelo
EMBOSS	6.6.0	Bioinformatics	Sapelo2
EMBOSS	6.6.0	Bioinformatics	Teaching
emirge	0.61.1	Bioinformatics	Sapelo
EMMAX beta	beta	Bioinformatics	Sapelo2
Ensembl-VEP	20180914	Bioinformatics	Sapelo2
EPIG-Seq	v01	Bioinformatics	Sapelo
EricScript	0.5.5	Bioinformatics	Sapelo2
ESMF	7.0.2	Other	Sapelo2
espeak	1.48.04	Other	Sapelo
eSpeak	1.48.04	Other	Sapelo2
exabayes	1.4.1	Bioinformatics	Sapelo
ExaML	3.0.11	Bioinformatics	Sapelo
exonerate	2.2.0	Bioinformatics	Sapelo
Exonerate	2.4.0	Bioinformatics	Sapelo2
Exonerate	2.4.0	Bioinformatics	Teaching
Expander	7.11	Bioinformatics	Sapelo
FALCON	0.4.0	Bioinformatics	Sapelo
FALCON	02282018_unzip	Bioinformatics	Sapelo2
Fast-Plast	1.2.6	Bioinformatics	Sapelo2
FASTA	36.3.5e	Bioinformatics	Sapelo2
FastME	2.1.5	Bioinformatics	Sapelo
FastME	2.1.5	Bioinformatics	Sapelo2
fastphase	1.4.0	Bioinformatics	Sapelo
FastPlast	1.2.6	Bioinformatics	Sapelo
FastQC	0.11.4	Bioinformatics	Sapelo
FastQC	0.11.5	Bioinformatics	Sapelo2
FASTQSim	3.0	Bioinformatics	Sapelo
FastQValidator	0.1.1a	Bioinformatics	Sapelo2
fastStructure	1.0	Bioinformatics	Sapelo
FastSTRUCTURE	1.0	Bioinformatics	Sapelo2
FastTree	2.1.10	Bioinformatics	Sapelo2
FastViromeExplorer	20180918	Bioinformatics	Sapelo2
FASTX-Toolkit	0.0.14	Bioinformatics	Sapelo2
FastX	0.0.13.2, 0.0.14	Bioinformatics	Sapelo
FFmpeg	2.8.2	Other	Sapelo
FFmpeg	3.1.3, 3.4.1	Other	Sapelo2
FFTW	2.1.5, 3.3.4	Math Library	Sapelo
FFTW	3.3.4, 3.3.6, 3.3.7	Math Library	Sapelo2
FIAT	1.6.0	Other	Sapelo2
Find_Cns	2016/07/21	Bioinformatics	Sapelo
fineRADstructure	2016/12/09	Bioinformatics	Sapelo
FineSTRUCTURE	2.0.7	Bioinformatics	Sapelo
fineSTRUCTURE	2.1.3	Bioinformatics	Sapelo2
FLASH	1.2.11	Bioinformatics	Sapelo
FLASH	1.2.11	Bioinformatics	Sapelo2
FLTK	1.3.4	Other	Sapelo2
Flye	2.3.6	Bioinformatics	Sapelo2
FoX	4.1.2	Library	Sapelo2
Freebayes	1.0.1	Bioinformatics	Sapelo
Freebayes	1.2.0	Bioinformatics	Sapelo2
FreeSurfer	6.0.0	Medical-Informatics	Sapelo
FriBidi	1.0.1	Library	Sapelo2
FuzzyWuzzy	0.17.0	Other	Sapelo2
fxtract	2.3	Bioinformatics	Sapelo2
GAG	2.0.1	Bioinformatics	Sapelo2
GAG	2.0.1	Bioinformatics	Teaching
gam-ngs	1.1b	Bioinformatics	Sapelo
GAMESS	5Dec2014	Chemistry	Sapelo
GAMESS	14Feb2018	Chemistry	Sapelo2
GAP	4.8.7	Other	Sapelo
GapFiller	2.1.1	Bioinformatics	Sapelo
GapFiller	2.1.1	Bioinformatics	Sapelo2
GapFiller	2.1.1	Bioinformatics	Teaching
GAPIT	20180524	Bioinformatics	Sapelo2
gat	1.2	Bioinformatics	Sapelo
gatk	3.6	Bioinformatics	Sapelo
GATK	3.4-0, 3.8-0, 3.8-1, 4.0.3.0	Bioinformatics	Sapelo2
GATK	3.8-0, 3.4-0	Bioinformatics	Teaching
GAUSSIAN	09	Chemistry	Sapelo
GAUSSIAN	09	Chemistry	Sapelo2
GaussView	5	Chemistry	Sapelo
GAWN	0.3.2	Bioinformatics	Sapelo
Gblocks	0.91b	Bioinformatics	Sapelo
GBlocks	0.91b	Bioinformatics	Sapelo2
GCTA	1.26.0	Bioinformatics	Sapelo
GCTA	1.26.0	Bioinformatics	Sapelo2
gd	2.2.4	Bioinformatics	Sapelo
GD	2.66	Bioinformatics	Sapelo2
gdal	2.1.0	Library	Sapelo
GDAL	2.1.0, 2.2.2	Library	Sapelo2
GDC-client	1.0.1	Bioinformatics	Sapelo
gdc-client	1.3.0	Bioinformatics	Sapelo2
Gdk-pixbuf	2.36.0	Library	Sapelo2
GEM-library	20130406-045632	Bioinformatics	Sapelo2
GEM	2.5	Bioinformatics	Sapelo
Gemini	0.20.0	Bioinformatics	Sapelo
GeneMark-ES	4.33	Bioinformatics	Sapelo
GeneMark.hmm.eukaryotic	4.30	Bioinformatics	Sapelo2
GeneMarkES	4.33	Bioinformatics	Sapelo2
GeneMarkES	4.33	Bioinformatics	Teaching
GeneMarkS-T	4.33	Bioinformatics	Sapelo2
GeneMarkS	4.30	Bioinformatics	Sapelo2
Gengetopt	2.22	Other	Sapelo
Genome	Phred version: 0.071220.c, Phrap version: 0.990329, Consed version: 29.0	Bioinformatics	Sapelo2
GenomeTools	1.5.9	Bioinformatics	Sapelo
GenomeTools	1.5.9	Bioinformatics	Sapelo2
GenomicConsensus	3.0.2	Bioinformatics	Sapelo
gensim	2.3.0	Library	Sapelo
geos	3.5.0	Library	Sapelo
GEOS	3.6.2	Library	Sapelo2
Gerud3	12202017	Bioinformatics	Sapelo
gff3ToGenePred	1.0	Bioinformatics	Sapelo
gffcompare	0.10.4	Bioinformatics	Sapelo
Gffcompare	0.10.4	Bioinformatics	Sapelo2
gffread	0.9.12	Bioinformatics	Sapelo2
GFlow	0.1.7	Library	Sapelo2
Ghostscript	9.20, 9.22	Other	Sapelo2
git	1.7.1, 2.7.0	Other	Sapelo
GKIN	1.1	Bioinformatics	Sapelo
GL2PS	1.4.0	Library	Sapelo2
GLib	2.49.5, 2.53.5, 2.54.3	Library	Sapelo2
GLIMMER	3.02b	Bioinformatics	Sapelo2
GLPK	4.63, 4.65	Programming	Sapelo2
GMA	0.1.5	Bioinformatics	Sapelo
gmap-gsnap	2017-01-14	Bioinformatics	Sapelo
GMAP-GSNAP	2016-11-07, 2018-07-04	Bioinformatics	Sapelo2
GMATA	2017-01-14	Bioinformatics	Sapelo
GMP	4.3.1, 6.0.0	Library	Sapelo
GMP	4.3.2, 6.1.1, 6.1.2	Library	Sapelo2
GMPFRXX	20081116	Library	Sapelo
GNU Compilers	4.4.7, 4.7.4, 5.3.0	Compiler	Sapelo
gnuplot	4.2.6	Bioinformatics	Sapelo
gnuplot	5.0.5	Bioinformatics	Sapelo2
GObject-Introspection	1.49.1, 1.54.1	Other	Sapelo2
google-cloud	0.32.0	Other	Sapelo
grace	5.1.25	Graphics	Sapelo
grace	5.1.25	Graphics	Sapelo2
GrADS	2.1a3	Other	Sapelo
GraftM	0.10.1	Bioinformatics	Sapelo
GraftM	0.11.1	Bioinformatics	Sapelo2
GraphicsMagicK	1.3.28	Other	Sapelo2
Graphviz	2.40.1	Other	Sapelo
Graphviz	2.40.1	Other	Sapelo2
Gromacs	5.0.2, 5.1.3	Chemistry	Sapelo
Gromacs	2016.4, 2018.1	Chemistry	Sapelo2
GSL	1.16	Math Library	Sapelo
GSL	1.16, 2.1, 2.3. 2.4	Math Library	Sapelo2
GStreamer	1.14.0	Bioinformatics	Sapelo2
GTK+	2.24.31	Library	Sapelo2
GTS	0.7.6	Library	Sapelo2
Guile	1.8.8	Other	Sapelo2
h5py	2.6.0	Other	Sapelo
h5py	2.7.1	Other	Sapelo2
hapcut2	20170126	Bioinformatics	Sapelo
Haploview	4.2	Bioinformatics	Sapelo
HarfBuzz	1.3.1, 1.7.5	Other	Sapelo2
harp	130306_105556	Bioinformatics	Sapelo
HARP	140925_103521	Bioinformatics	Sapelo2
HarvestTools	1.2	Bioinformatics	Sapelo2
HDF5	1.8.6, 1.8.14	Library	Sapelo
HGTFinder	20170929	Bioinformatics	Sapelo
HH-suite	3.0	Bioinformatics	Sapelo
hic-pro	2.8.0	Bioinformatics	Sapelo
HiC-Pro	2.11.0-beta	Bioinformatics	Sapelo2
HiCUP	0.5.9	Bioinformatics	Sapelo
hindex	1.42	Bioinformatics	Sapelo2
HINGE	032717	Bioinformatics	Sapelo
HipMer	0.9.4	Bioinformatics	Sapelo
HISAT2	2.1.0	Bioinformatics	Sapelo
HISAT2	2.1.0	Bioinformatics	Sapelo2
HISAT2	2.1.0	Bioinformatics	Teaching
Hmmer	3.1b2	Bioinformatics	Sapelo
HMMER	3.1b2	Bioinformatics	Sapelo2
Homer	4.8	Bioinformatics	Sapelo
Homer	4.9.1, 4.10	Bioinformatics	Sapelo2
HPCGridRunner	1.0.2	Tools	Sapelo
HPCGridRunner	1.0.2	Tools	Sapelo2
htop	2.0.1	Other	Sapelo2
htseq	0.6.1p1	Bioinformatics	Sapelo
HTSeq	0.9.1	Bioinformatics	Sapelo2
HTSlib	1.3.2, 1.6, 1.8	Library	Sapelo2
HUMAnN2	0.6.1	Bioinformatics	Sapelo
HybPiper	1.3.1	Bioinformatics	Sapelo2
HyDe	1.0	Bioinformatics	Sapelo
HyPhy	2.3.5	Bioinformatics	Sapelo
Hypre	2.11.1	Library	Sapelo2
I-TASSER	5.0	Bioinformatics	Sapelo
IDBA	1.1.2	Bioinformatics	Sapelo
IGV	2.3.81	Bioinformatics	Sapelo
IGV	2.4.4	Bioinformatics	Sapelo2
IGVTools	2.3.81	Bioinformatics	Sapelo
IGVTools	2.3.98	Bioinformatics	Sapelo2
illumiprocessor	2.0.7	Bioinformatics	Sapelo
ImageMagick	7.0.5	Other	Sapelo2
Infernal	1.1.2	Bioinformatics	Sapelo2
Intel Compilers	14.0.0, 15.0.2	Compiler	Sapelo
iprscan (InterProScan)	5.16-55.0	Bioinformatics	Sapelo
iprscan (InterProScan)	5.29-68.0, 5.31-70.0	Bioinformatics	Sapelo2
ipyrad	0.3.7, 0.5.15, 0.7.3	Bioinformatics	Sapelo
ipyrad	0.7.24	Bioinformatics	Sapelo2
Ipyrad	0.7.24	Bioinformatics	Teaching
IPython	5.3.0, 6.2.1	Other	Sapelo2
IQ-Tree	1.5.5, 1.6.1	Bioinformatics	Sapelo
IQ-Tree	1.5.5, 1.6.5	Bioinformatics	Sapelo2
iRep	1.10	Bioinformatics	Sapelo
IRMA	0.6.7	Bioinformatics	Sapelo2
IsoSeq_SA3nUP	09272017	Bioinformatics	Sapelo
ITSTool	2.0.4	Utility	Sapelo2
iva	1.0.3	Bioinformatics	Sapelo
JAGS	3.4.0, 4.1.0, 4.2.0	Statistics	Sapelo
JAGS	4.3.0	Statistics	Sapelo2
JasPer	1.900.1	Other	Sapelo
JasPer	1.900.1, 2.0.12	Other	Sapelo2
Java	6, 7, 8	Programming	Sapelo
Java	1.8.0_92, 1.8.0_112, 1.8.0_121, 1.8.0_141, 1.8.0_144	Programming	Sapelo2
Java	1.8.0_92, 1.8.0_112, 1.8.0_121, 1.8.0_141, 1.8.0_144	Programming	Teaching
Jellyfish	2.2.3	Bioinformatics	Sapelo
Jellyfish	2.2.6	Bioinformatics	Sapelo2
JModelTest	2.1.10	Bioinformatics	Sapelo2
Juicer	1.5.6	Bioinformatics	Sapelo2
JUnit	4.12	Other	Sapelo2
Jupyter Notebook	2.5.0	Programming	Sapelo
Kaiju	1.6.2	Bioinformatics	Sapelo2
kallisto	0.42.5	Bioinformatics	Sapelo
kallisto	0.43.1	Bioinformatics	Sapelo2
KAT	2.3.4	Bioinformatics	Sapelo
KAT	2.4.1	Bioinformatics	Sapelo2
KentUtils	302.1.0	Bioinformatics	Sapelo
keras	1.0.8, 2.0.4	Other	Sapelo
keras	2.0.6, 2.2.2	Other	Sapelo2
KmerGenie	1.7016	Bioinformatics	Sapelo
KmerGenie	1.7044	Bioinformatics	Sapelo2
KmerGenie	1.7044	Bioinformatics	Teaching
Kraken	0.10.5-beta	Bioinformatics	Sapelo
KronaTools	2.7	Bioinformatics	Sapelo2
LAME	3.100	Other	Sapelo2
LAMMPS	16Aug13, 5Sep14, 10Aug15, 7Dec15, 16Feb16, 30Jul16, 17Nov16	Chemistry	Sapelo
LAPACK	3.6.1	Other	Sapelo2
LAST	719	Bioinformatics	Sapelo
LAST	956	Bioinformatics	Sapelo2
LASTZ	1.02.00, 1.03.73	Bioinformatics	Sapelo
LASTZ	1.04.00	Bioinformatics	Sapelo2
LDhat	2.2	Bioinformatics	Sapelo
LDhat	2.2	Bioinformatics	Sapelo2
LDhelmet	1.7	Bioinformatics	Sapelo
LDhelmet	1.10	Bioinformatics	Sapelo2
LDhot	0.4	Bioinformatics	Sapelo
LEfSe	20160621	Bioinformatics	Sapelo
libradtran	1.7, 2.0.1	Other	Sapelo
librosa	0.4.3	Other	Sapelo
LibStatGen	1.0.14	Bioinformatics	Sapelo2
LIBSVM	3.21	Other	Sapelo
LibTIFF	4.0.6, 4.0.8, 4.0.9	Library	Sapelo2
LittleCMS	2.8	Other	Sapelo2
LLVM	3.8.1, 4.0.0, 5.0.1, 6.0.0	Library	Sapelo2
LMDB	0.9.22	Bioinformatics	Sapelo2
lmod	5.8	Other	Sapelo
LocARNA	1.9.2	Bioinformatics	Sapelo
LoFreq	2.1.2	Bioinformatics	Sapelo
LoFreq	2.1.2	Bioinformatics	Sapelo2
Log-Log4perl	1.49	Other	Sapelo2
LongRanger	2.2.2	Bioinformatics	Sapelo2
lrslib	6.2	Other	Sapelo2
LS-DYNA	10.123355	Engineering	Sapelo2
LS-PrePost	4.5	Engineering	Sapelo2
LTR_retriever	20170907	Bioinformatics	Sapelo
LTR_retriever	1.6	Bioinformatics	Sapelo2
LUMPY	0.2.13	Bioinformatics	Sapelo
LUMPY	0.2.13	Bioinformatics	Sapelo2
LZO	2.1.0	Bioinformatics	Sapelo
LZO	2.10	Bioinformatics	Sapelo2
M4	1.4.16, 1.4.17, 1.4.17	Other	Sapelo2
MaCS-simulator	0.5d	Bioinformatics	Sapelo
MACS2	2.1.1	Bioinformatics	Sapelo
MACS2	2.1.1	Bioinformatics	Sapelo2
Mafft	7.273-e	Bioinformatics	Sapelo
MAFFT	7.273, 7.313, 7.397	Bioinformatics	Sapelo2
MAFFT	7.130, 7.273, 7.313	Bioinformatics	Teaching
mageck-vispr	02242017	Bioinformatics	Sapelo
mageck	0.5	Bioinformatics	Sapelo
Magma-GPU	2.3.0	Other	Sapelo2
Magma	2.22-9	Other	Sapelo
Magma	2.22-9	Other	Sapelo2
Mahotas	1.4.3	Bioinformatics	Sapelo
mahotas	1.4.3	Bioinformatics	Sapelo2
Make	4.2	Programming	Sapelo
Maker	2.31.9	Bioinformatics	Sapelo2
Maker	2.31.9	Bioinformatics	Teaching
Mako	1.0.4, 1.0.7	Other	Sapelo2
MARVEL	20180918	Bioinformatics	Sapelo2
MaSuRCA	3.1.3	Bioinformatics	Sapelo
MaSuRCA	3.2.2	Bioinformatics	Sapelo2
Matlab	R2015aSP1, R2015b, R2016b	Programming	Sapelo
Matlab	R2017b	Programming	Sapelo2
Mauve	2.4.0	Bioinformatics	Sapelo
Mauve	2015-02-13	Bioinformatics	Sapelo2
Maven	3.5.2	Bioinformatics	Sapelo2
MaxBin	2.1.1	Bioinformatics	Sapelo
MCL	14.137	Bioinformatics	Sapelo2
MCScanX-transposed	0.8	Bioinformatics	Sapelo
MCScanX	0.8	Bioinformatics	Sapelo
MCScanX	0.8	Bioinformatics	Sapelo2
MDEnergy	2.3	Chemistry	Sapelo
MEGA	7.0.26-1	Bioinformatics	Sapelo2
Megahit	1.1.1	Bioinformatics	Sapelo
MEGAHIT	1.1.1, 1.1.3	Bioinformatics	Sapelo2
MEGAN	6.4.3	Bioinformatics	Sapelo
MEME	4.10.2, 4.11.0	Bioinformatics	Sapelo
MEME	4.11.0, 5.0.0_1	Bioinformatics	Sapelo2
Meraculous	2.0	Bioinformatics	Sapelo
Meraculous	2.2.5	Bioinformatics	Sapelo2
Mercurial	3.9	Other	Sapelo
Mercurial	4.4.2	Other	Sapelo2
Mesa	12.0.2, 17.3.6	Other	Sapelo2
MET	7.0	Other	Sapelo2
MetaBAT	20151110	Bioinformatics	Sapelo
Metal	20110325	Bioinformatics	Sapelo
Metaphlan2	2.0	Bioinformatics	Sapelo
metaSort	1.3	Bioinformatics	Sapelo
Metavelvet	1.2.02	Bioinformatics	Sapelo
MetavelvetSL	1.0	Bioinformatics	Sapelo
MethPipeline	0.1_120115	Bioinformatics	Sapelo
methylpy	08/25/2016	Bioinformatics	Sapelo
methylpy	1.2.9, 1.3.2	Bioinformatics	Sapelo2
METIS	5.1.0	Other	Sapelo2
MHAP	2.1.1	Bioinformatics	Sapelo
Migrate	3.6.11	Bioinformatics	Sapelo
minced	0.2.1	Bioinformatics	Sapelo2
Miniconda3	4.4.10	Other	Sapelo2
Minimac3	2.0.1	Bioinformatics	Sapelo
Minimap2	2.10, 2.13	Bioinformatics	Sapelo2
Minimap	0.2	Bioinformatics	Sapelo
miRanda	aug2010	Bioinformatics	Sapelo
mirdeep-p	1.3	Bioinformatics	Sapelo
mirdeep-p	1.3	Bioinformatics	Sapelo2
miRDeep2	0.0.9	Bioinformatics	Sapelo
miRDeep2	0.0.8	Bioinformatics	Sapelo2
MISO	09132016	Bioinformatics	Sapelo
MITE-Hunter	11-2011	Bioinformatics	Sapelo2
MKL	11.1, 11.2	Math Library	Sapelo
mlehot	1.8.16	Bioinformatics	Sapelo
MOABS	1.3.2	Bioinformatics	Sapelo
MOCAT	1.3r2	Bioinformatics	Sapelo
MOTHUR	1.37.5, 1.39.5	Bioinformatics	Sapelo
Mothur	1.39.5	Bioinformatics	Sapelo2
motif	2.3.5, 2.3.8	Graphics	Sapelo2
MP-EST	1.5	Bioinformatics	Sapelo
MPFR	3.1.2	Library	Sapelo
MPFRC++	3.6.2	Library	Sapelo
MPJ-Express	0.44	Library	Sapelo2
Mplus	7.4	Statistics	Sapelo
MrBayes	3.2.6	Bioinformatics	Sapelo
MrBayes	3.2.6	Bioinformatics	Sapelo2
MrDemuxy	1.2.0	Bioinformatics	Sapelo
MREPS	1.0.5	Bioinformatics	Sapelo2
MSTmap	20170927	Bioinformatics	Sapelo
MultiLoc2	26-10-2009	Bioinformatics	Sapelo
MultiMappingCounter	21-09-2017	Bioinformatics	Sapelo
MultiQC	1.5	Bioinformatics	Sapelo2
MUMmer	3.23	Bioinformatics	Sapelo
MUMmer	3.23, 4.0.0beta2	Bioinformatics	Sapelo2
MUMmer	3.23	Bioinformatics	Teaching
MUSCLE	3.8.31	Bioinformatics	Sapelo
MUSCLE	3.8	Bioinformatics	Sapelo2
MuTect	1.1.5	Bioinformatics	Sapelo
MuTect	1.1.7	Bioinformatics	Sapelo2
MVFtools	10112017	Bioinformatics	Sapelo
NAMD	2.11	Chemistry	Sapelo
NAMD	2.12	Chemistry	Sapelo2
Nanocorr	5.9	Bioinformatics	Sapelo2
NASM	2.11, 2.12, 2.13	Other	Sapelo2
NCBI Blast +	2.2.29	Bioinformatics	Sapelo
NCBI Blast	2.2.26	Bioinformatics	Sapelo
NCBIBLAST+	2.7.1	Bioinformatics	Sapelo
Ncbi_tools++	12.0.0	Bioinformatics	Sapelo
NCL	2.1.18, 6.4.0	Bioinformatics	Sapelo2
NeEstimator	2.1	Bioinformatics	Sapelo2
NETCDF	3.6.3, 4.1.3, 4.3.2	Library	Sapelo
Newbler	2.6	Bioinformatics	Sapelo
Newbler	3.0	Bioinformatics	Sapelo2
NextGenMap	0.5.5	Bioinformatics	Sapelo2
ngmlr	0.2.6-beta	Bioinformatics	Sapelo2
NGS-QC Toolkit	2.3.3	Bioinformatics	Sapelo
NGS	1.3.0	Bioinformatics	Sapelo2
Ngsutils	0.5.9	Bioinformatics	Sapelo
nhPhyML	20180515	Bioinformatics	Sapelo2
NiBabel	2.2.1	Other	Sapelo2
nistats	0.0.1a0	Other	Sapelo2
NLopt	2.4.2	Library	Sapelo2
Nseg	20180530	Bioinformatics	Sapelo2
NucleoATAC	0.3.4	Bioinformatics	Sapelo2
NWCHEM	6.5	Chemistry	Sapelo
NxTrim	v0.3.2-alpha	Bioinformatics	Sapelo
Oases	0.2.08, 0.2.09	Bioinformatics	Sapelo2
OCaml	4.01.0, 4.02.3	Programming	Sapelo2
Octave	4.0.3	Programming	Sapelo
Oligotyping	2.1	Bioinformatics	Sapelo
OpenBUGS	3.2.3	Statistics	Sapelo
OpenBUGS	3.2.3	Statistics	Sapelo2
OpenCV	2.4.13.3, 3.0	Other	Sapelo
OpenCV	3.4.1	Other	Sapelo2
OpenJPEG	2.3.0	Other	Sapelo2
OpenSlide	3.4.1	Other	Sapelo2
opera	2.0.6	Bioinformatics	Sapelo
ORCA	3.0.3, 4.0.0	Chemistry	Sapelo
ORCA	3.0.3, 4.0.0.2, 4.0.1.2	Chemistry	Sapelo2
OrfM	0.6.1	Bioinformatics	Sapelo2
ORGanelle_ASeMbler	0.2.03	Bioinformatics	Sapelo2
ORGASM	0.2.03	Bioinformatics	Sapelo2
ORP	2.0.0	Bioinformatics	Sapelo2
OrthoFiller	1.1.4	Bioinformatics	Sapelo
OrthoFinder	1.1.8	Bioinformatics	Sapelo
OrthoFinder	2.1.2	Bioinformatics	Sapelo2
OrthoFinder	2.1.2	Bioinformatics	Teaching
PAGIT	1.64	Bioinformatics	Sapelo2
palfinder	0.02.04	Bioinformatics	Sapelo
paml	4.8	Bioinformatics	Sapelo
PAML	4.9h	Bioinformatics	Sapelo2
PAML	4.9h	Bioinformatics	Teaching
pandas	0.16.0	Other	Sapelo
PANDAseq	2.5	Bioinformatics	Sapelo2
Pango	1.40.3, 1.41.1	Library	Sapelo2
ParaFly	0.1.0	utility	Sapelo
Parliament2	0.1.8, hgsc	Bioinformatics	Sapelo2
Parsnp	1.2	Bioinformatics	Sapelo2
PartitionFinder	2.1.1	Bioinformatics	Sapelo2
PASA	2.3.3	Bioinformatics	Sapelo2
PASTA	1.6.4	Bioinformatics	Sapelo
PASTA	1.8.2	Bioinformatics	Sapelo2
Paup	4a147	Bioinformatics	Sapelo
PAUP	4a162_centos64_intel	Bioinformatics	Sapelo2
pbh5tools	0.8.0	Bioinformatics	Sapelo2
PBLAT	2.0.0	Bioinformatics	Sapelo2
PBSuite	15.8.24	Bioinformatics	Sapelo
PBSuite	15.8.24	Bioinformatics	Sapelo2
PCRE	8.38, 8.39, 8.41	Library	Sapelo2
Peakranger	1.18	Bioinformatics	Sapelo
PEAR	0.9.10-src	Bioinformatics	Sapelo
PEAR	0.9.8	Bioinformatics	Sapelo2
PePr	1.1.18	Bioinformatics	Sapelo
Perl	5.24.0-thread	Programming	Sapelo
Perl	5.20.3, 5.24.0, 5.24.1, 5.26.0, 5.26.1	Programming	Sapelo2
Perl	5.26.1, 5.26.0, 5.24.1, 5.24.0, 5.20.3	Programming	Teaching
PETSc	3.7.6	Math Library	Sapelo
PETSc	3.8.4	Math Library	Sapelo2
PGDSpider	2.1.1.5	Bioinformatics	Sapelo2
PGI Compilers	2014	Compiler	Sapelo
PHASE	2.1.1	Bioinformatics	Sapelo
phaser	1.2.0	Bioinformatics	Sapelo
phaser	1.2.0	Bioinformatics	Sapelo2
PhaseTank	1.0	Bioinformatics	Sapelo
PhaseTank	1.0	Bioinformatics	Sapelo2
Phobius	1.01	Bioinformatics	Sapelo2
Phred/Phrap/Conced	Phred version: 0.071220.c, Phrap version: 0.990329, Consed version: 29.0	Bioinformatics	Sapelo2
Phycas	2.2.0	Bioinformatics	Sapelo2
PHYLIP	3.697	Bioinformatics	Sapelo2
PhyloBayes-MPI	1.7	Bioinformatics	Sapelo
PhyloBayes-MPI	20161021	Bioinformatics	Sapelo2
PhyloCSF	20180919	Bioinformatics	Sapelo2
PhyloGenie	11082017	Bioinformatics	Sapelo
PhyloNet	3.6.0	Bioinformatics	Sapelo
phyluce	1.5.0	Bioinformatics	Sapelo
Phyluce	1.6.1	Bioinformatics	Sapelo2
PhyML	3.0	Bioinformatics	Sapelo
PhyML	3.3.20170530	Bioinformatics	Sapelo2
picard	2.1.1, 2.4.1	Bioinformatics	Sapelo
picard	2.16.0	Bioinformatics	Sapelo2
Picard	2.16.0	Bioinformatics	Teaching
picrust	1.1.0	Bioinformatics	Sapelo
PICRUSt	1.1.3	Bioinformatics	Sapelo2
pigz	2.3.4	Other	Sapelo
pigz	2.3.3	Other	Sapelo2
PIL	1.1.7	Library	Sapelo2
PILER	2.5	Bioinformatics	Sapelo2
Pilon	1.21	Bioinformatics	Sapelo
Pilon	1.22	Bioinformatics	Sapelo2
Pilon	1.22	Bioinformatics	Teaching
Pindel	0.2.5b8	Bioinformatics	Sapelo
pIRS	2.0.2	Bioinformatics	Sapelo
Pitchfork	09272017	Bioinformatics	Sapelo
platypus	0.8.1	Bioinformatics	Sapelo
PLEK	1.2	Bioinformatics	Sapelo
plink	1.07, 1.9-beta3	Bioinformatics	Sapelo
PLINK	1.07, 1.9b	Bioinformatics	Sapelo2
PLUMED	2.3.3	Chemistry	Sapelo
poretools	0.6.0	Bioinformatics	Sapelo
portaudio	19	Other	Sapelo
PRANK	170427	Bioinformatics	Sapelo2
PRATT	2.1	Bioinformatics	Sapelo
prep-chem-src	1.5	Other	Sapelo
Primer3	2.0.0-alpha	Bioinformatics	Sapelo
Primer3	2.3.7	Bioinformatics	Sapelo2
PRINSEQ	0.20.4	Bioinformatics	Sapelo
PRINSEQ	0.20.4	Bioinformatics	Sapelo2
ProbABEL	0.5.0	Bioinformatics	Sapelo
Prodigal	2.6.3	Bioinformatics	Sapelo
Prodigal	2.6.3	Bioinformatics	Sapelo2
PROJ	4.9.2	Other	Sapelo2
Prokka	1.11	Bioinformatics	Sapelo
Prokka	1.13	Bioinformatics	Sapelo2
proovread	2.12	Bioinformatics	Sapelo
proovread	2.14.1	Bioinformatics	Sapelo2
Proovread	2.14.1	Bioinformatics	Teaching
protobuf	2.4.1, 2.6.1, 3.0.0-beta1	Other	Sapelo
protobuf	3.3.0, 3.4.0	Other	Sapelo2
Prottest3	3.4.2	Bioinformatics	Sapelo
pybedtools	09/22/2016	Bioinformatics	Sapelo
pybedtools	0.7.10	Bioinformatics	Sapelo2
pyDNase	0.2.5	Bioinformatics	Sapelo
pydub	0.21.0	Other	Sapelo
pydub	0.22.1	Other	Sapelo2
pyfasta	0.5.2	Bioinformatics	Sapelo
PyPy	2.7-5.10.0	Programming	Sapelo
PyPy	6.0.0 (2.7.14)	Programming	Sapelo2
pyRAD	3.0.64	Bioinformatics	Sapelo
Pysam	0.10.0, 0.13	Bioinformatics	Sapelo2
Python	2.6.6, 2.7.8, 2.7.13, 3.5.2, 3.6.4	Programming	Sapelo
Python	2.7.12, 2.7.14, 3.4.3, 3.5.1	Programming	Sapelo2
Python	3.6.4, 3.5.2, 2.7.14, 2.7.12	Programming	Teaching
PyTorch	0.1.9, 0.1.11	Other	Sapelo
PyTorch	0.3.1	Other	Sapelo2
QIIME2	2018.2, 2018.4, 2018.6, 2018.8	Bioinformatics	Sapelo2
QIIME2	2018.4, 2018.6, 2018.8	Bioinformatics	Teaching
Qiime	1.9.1	Bioinformatics	Sapelo
QIIME	1.9.1	Bioinformatics	Sapelo2
QTLcartographer	1.17j	Bioinformatics	Sapelo2
Quake	0.3	Bioinformatics	Sapelo
Qualimap2	2.2.1	Bioinformatics	Sapelo
Qualimap2	2.2.1	Bioinformatics	Sapelo2
Quantum Espresso	5.4.0	Chemistry	Sapelo
Quantum Espresso	6.2.0	Chemistry	Sapelo2
QUAST	4.5	Bioinformatics	Sapelo
QUAST	4.2, 4.6.1, 4.6.3, 5.0.0	Bioinformatics	Sapelo2
R	3.1.2, 3.2.1, 3.2.3, 3.3.1	Statistics	Sapelo
R	3.4.4	Statistics	Sapelo2
R	3.4.4	Statistics	Teaching
racon	20161214	Bioinformatics	Sapelo
racon	20180406	Bioinformatics	Sapelo2
Randfold	2.0.1	Bioinformatics	Sapelo
randfold	2.0.1	Bioinformatics	Sapelo2
RAPSearch2	2.23	Bioinformatics	Sapelo
RATT	10052017	Bioinformatics	Sapelo
RATT	20180710	Bioinformatics	Sapelo2
RAxML	8.2.4	Bioinformatics	Sapelo
RAxML	8.2.4, 8.2.11	Bioinformatics	Sapelo2
RAxML	8.2.11	Bioinformatics	Teaching
Ray	2.3.1	Bioinformatics	Sapelo
Ray	2.3.1	Bioinformatics	Sapelo2
Rcorrector	1.0.2	Bioinformatics	Sapelo2
RDPTools	2.2.0	Bioinformatics	Sapelo
READemption	0.3.7	Bioinformatics	Sapelo
REAPR	1.0.18	Bioinformatics	Sapelo
REAPR	1.0.18	Bioinformatics	Sapelo2
RECON	1.08	Bioinformatics	Sapelo2
RED	1.0	Bioinformatics	Sapelo
REPCLASS	1.0.1	Bioinformatics	Sapelo
repdenovo	02232017	Bioinformatics	Sapelo
RepeatExplorer-TAREAN	12/13/2016, 01/10/2017	Bioinformatics	Sapelo
RepeatExplorer	02/2015	Bioinformatics	Sapelo
Repeatmasker	4.0.5	Bioinformatics	Sapelo
RepeatMasker	4.0.5, 4.0.7	Bioinformatics	Sapelo2
RepeatMasker	4.0.7	Bioinformatics	Teaching
Repeatmodeler	1.0.8	Bioinformatics	Sapelo
Repeatmodeler	1.0.11	Bioinformatics	Sapelo2
RepeatModeler	1.0.11	Bioinformatics	Teaching
RepeatScout	1.05	Bioinformatics	Sapelo2
RepeatScout	1.05	Bioinformatics	Teaching
REPET	2.5	Bioinformatics	Sapelo2
RES-Scanner	20170726	Bioinformatics	Sapelo
Revbayes	1.0.5	Bioinformatics	Sapelo
RGT	0.11.2	Bioinformatics	Sapelo
rjags	4.6	Other	Sapelo2
RMBlast	2.6.0	Bioinformatics	Sapelo2
Rmpi	0.6-6	Programming	Sapelo
Rmpi	0.6-6	Programming	Sapelo2
RNAmmer	1.2	Bioinformatics	Sapelo
RNAmmer	1.2	Bioinformatics	Sapelo2
RNAple	0.2	Bioinformatics	Sapelo
Roary	3.8	Bioinformatics	Sapelo
Roary	3.12.0	Bioinformatics	Sapelo2
Roms_tools	3.1.1	Other	Sapelo
Rosetta	2016.15.58628, 2017.26.59567	Chemistry	Sapelo
Rosetta	2017.45.59812	Chemistry	Sapelo2
RSEM	1.2.20	Bioinformatics	Sapelo
RSEM	1.3.0	Bioinformatics	Sapelo2
RSeQC	2.6.4	Bioinformatics	Sapelo
Ruby	2.4.2	Programming	Sapelo
Ruby	2.5.0	Programming	Sapelo2
runBNG	1.03	Bioinformatics	Sapelo2
Sabre	02/03/2017	Other	Sapelo
Sage	7.4, 8.0	Other	Sapelo
Sage	8.0	Other	Sapelo2
Salmon	0.6.1-pre	Bioinformatics	Sapelo
Salmon	0.8.2	Bioinformatics	Sapelo2
SALSA	2.0	Bioinformatics	Sapelo2
sam2pairwise	1.0.0	Bioinformatics	Sapelo
samtools	1.3.1 1.6	Bioinformatics	Sapelo
SAMtools	0.1.19, 1.1, 1.3.1, 1.6	Bioinformatics	Sapelo2
SAMtools	1.6, 1.3.1, 0.1.19	Bioinformatics	Teaching
SATé	2.2.7	Bioinformatics	Sapelo
sbt	0.13.12, 1.0.2	Programming	Sapelo
sbt	1.1.1	Programming	Sapelo2
scala	2.10.6, 2.11.7, 2.12.0-RC1, 2.12.1	Programming	Sapelo
scala	2.12.4	Programming	Sapelo2
ScaLAPACK	2.0.2	Math Library	Sapelo
scalpel	0.5.3	Bioinformatics	Sapelo
scikit-image	0.13.1, 0.14.0	Other	Sapelo2
SCons	2.5.0	Other	Sapelo2
SCOTCH	6.0.4	Other	Sapelo2
Scripture	3/20/2015	Bioinformatics	Sapelo
seaview	4.7	Bioinformatics	Sapelo2
Seq-Gen	1.3.3	Bioinformatics	Sapelo
seqtk	1.0-r63-dirty	Bioinformatics	Sapelo
seqtk	1.2	Bioinformatics	Sapelo2
SGA	0.10.15	Bioinformatics	Sapelo
shapeit	v2.r837	Bioinformatics	Sapelo
shapeit	v2.r904	Bioinformatics	Sapelo2
SHORE	0.9.3	Bioinformatics	Sapelo
ShortStack	3.8.5	Bioinformatics	Sapelo
ShortStack	3.8.5	Bioinformatics	Sapelo2
sicer	1.1	Bioinformatics	Sapelo
sickle	1.33	Bioinformatics	Sapelo
SignalP	4.1f	Bioinformatics	Sapelo2
Silix	1.2.9	Bioinformatics	Sapelo2
SInC-simulator	2017.06.06	Bioinformatics	Sapelo
SINE_Scan	1.1.1	Bioinformatics	Sapelo
SINE_Scan	1.1.1	Bioinformatics	Sapelo2
slda	0.1.4	Other	Sapelo
slda	0.1.6	Other	Sapelo2
smoke	4.5	Other	Sapelo2
SMRTanalysis	3.0.2	Bioinformatics	Sapelo
SMRTLINK	5.1.0.26412, 6.0.0.47841	Bioinformatics	Sapelo2
SMRTLINK	5.0.1.9585, 5.1.0.26412	Bioinformatics	Teaching
snakemake	4.0.0	Bioinformatics	Sapelo
SNAP-Zoe	20060728	Bioinformatics	Sapelo2
SNAP-Zoe	20060728	Bioinformatics	Teaching
Sniffles	1.0.8	Bioinformatics	Sapelo2
SNP-ML	1.3.0	Bioinformatics	Sapelo2
snpEff	4.3t	Bioinformatics	Sapelo2
SnpEff	4.3t	Bioinformatics	Teaching
SNPhylo	20160204	Bioinformatics	Sapelo
SNPhylo	20160204	Bioinformatics	Sapelo2
SOAPaligner	2.21	Bioinformatics	Sapelo
SOAPaligner	2.21	Bioinformatics	Sapelo2
SOAPdenovo2	r240	Bioinformatics	Sapelo
SOAPdenovo2	r240	Bioinformatics	Sapelo2
SOAPdenovo2	r240	Bioinformatics	Teaching
SOP-GPU	20180404	Bioinformatics	Sapelo2
SortMeRNA	2.1	Bioinformatics	Sapelo
SortMeRNA	2.1	Bioinformatics	Sapelo2
SPAdes	3.7.0, 3.8.0, 3.9.0, 3.10.0, 3.11.0	Bioinformatics	Sapelo
SPAdes	3.11.1, 3.12.0	Bioinformatics	Sapelo2
SPAdes	3.11.1	Bioinformatics	Teaching
spams	2.6.1	Other	Sapelo2
Spark	1.6.0, 2.0.1, 2.2.1	Other	Sapelo
Spark	2.2.1	Other	Sapelo2
SpeedSeq	052317	Bioinformatics	Sapelo
SPM	12	Other	Sapelo2
SQUID	1.1	Bioinformatics	Sapelo
SRAToolKit	2.8.2-1	Bioinformatics	Sapelo
SRAToolKit	2.8.2-1, 2.9.1	Bioinformatics	Sapelo2
SSAHA2	2.5.5	Bioinformatics	Sapelo2
SSPACE-longread	1-1	Bioinformatics	Teaching
SSPACE-STANDARD	3.0	Bioinformatics	Teaching
SSPACE	2.1.1	Bioinformatics	Sapelo
SSPACE	2.1.1	Bioinformatics	Sapelo2
stacks	1.40, 1.44, 2.0beta2, 2.0beta7	Bioinformatics	Sapelo
Stacks	1.48, 2.2	Bioinformatics	Sapelo2
Stacks	2.0, 1.48	Bioinformatics	Teaching
STAMP	2.1.3	Bioinformatics	Sapelo
STAMPY	1.0.31	Bioinformatics	Sapelo
STAR	2.5.3a	Bioinformatics	Sapelo
STAR	2.5.3a, 2.6.0c	Bioinformatics	Sapelo2
STAR	2.5.3a, 2.6.0c	Bioinformatics	Teaching
STAR-Fusion	1.5.0	Bioinformatics	Sapelo2
StrAuto	1.0	Bioinformatics	Sapelo2
StringTie	1.2.0	Bioinformatics	Sapelo
StringTie	1.3.3	Bioinformatics	Sapelo2
StringTie	1.3.3, 1.3.4d	Bioinformatics	Teaching
structure	2.3.4	Bioinformatics	Sapelo
Structure	2.3.4	Bioinformatics	Sapelo2
subread	1.5.2	Bioinformatics	Sapelo
Subread	1.6.2	Bioinformatics	Sapelo2
SUNTANS	20150923	Other	Sapelo
SUNTANS	20180305	Other	Sapelo2
Supernova	2.0.1, 2.1.1	Bioinformatics	Sapelo2
SUPPA	06122015	Bioinformatics	Sapelo
SVDetect	0.7	Bioinformatics	Sapelo
SVDetect	0.7	Bioinformatics	Sapelo2
SVMlight	6.02	Other	Sapelo
SWIG	3.0.12	Bioinformatics	Sapelo
SWIG	3.0.12	Bioinformatics	Sapelo2
T-Coffee	11.00.8cbe486	Bioinformatics	Sapelo
T-REX	1.0	Bioinformatics	Sapelo
Tandem Repeats Finder	4.09	Bioinformatics	Sapelo
tassel	5.2.42	Bioinformatics	Sapelo
TASSEL	5.2.44	Bioinformatics	Sapelo2
Tbl2asn	04172018	Bioinformatics	Sapelo2
TCSF_IMRA	1.3	Bioinformatics	Sapelo2
TensorFlow-models	20180620	Other	Sapelo2
TensorFlow	1.8.0, 1.10.1	Other	Sapelo2
TEPID	0.6	Bioinformatics	Sapelo
tesseract	3.04.01	Bioinformatics	Sapelo
Theano	0.8.0	Other	Sapelo
Theano	0.9.0	Other	Sapelo2
TIGRA	0.4.0	Bioinformatics	Sapelo
TMHMM	2.0c	Bioinformatics	Sapelo2
TOFU2	3.9	Bioinformatics	Sapelo
tophat	2.0.14	Bioinformatics	Sapelo
Tophat	2.1.1	Bioinformatics	Sapelo2
TopHat	2.1.1	Bioinformatics	Teaching
TPP	5.1.0	Bioinformatics	Sapelo2
TransDecoder	2.0.1	Bioinformatics	Sapelo
TransDecoder	2.1.0	Bioinformatics	Sapelo2
Transposome	0.09.7	Bioinformatics	Sapelo
TransposonPSI	08222010	Bioinformatics	Sapelo
Transrate	1.0.1	Bioinformatics	Sapelo
TreeMix	1.13	Bioinformatics	Sapelo
TrimAl	1.4.1	Bioinformatics	Sapelo2
TrimGalore	4.0	Bioinformatics	Sapelo
trimmomatic	0.36	Bioinformatics	Sapelo
Trimmomatic	0.36	Bioinformatics	Sapelo2
Trimmomatic	0.36	Bioinformatics	Teaching
Trim_Galore	0.4.5	Bioinformatics	Sapelo2
Trinity	2.06	Bioinformatics	Sapelo
Trinity	r20140717, 2.5.1, 2.6.6	Bioinformatics	Sapelo2
Trinity	2.6.6	Bioinformatics	Teaching
Trinotate	3.1.1	Bioinformatics	Sapelo
Trinotate	3.1.1	Bioinformatics	Sapelo2
TRNAscan-SE	2.0.0	Bioinformatics	Sapelo
TRNAscan-SE	2.0.0	Bioinformatics	Sapelo2
UCHIME	4.2.40	Bioinformatics	Sapelo
UCLUST	1.2.22q	Bioinformatics	Sapelo2
UCSC	06-17-2015	Bioinformatics	Sapelo
ucsc	359	Bioinformatics	Sapelo2
UPP	3.2	Other	Sapelo2
usearch	10.0.240	Bioinformatics	Sapelo
USEARCH	10.0.240	Bioinformatics	Sapelo2
VarScan	2.4.2	Bioinformatics	Sapelo2
VCF-kit	0.1.6	Bioinformatics	Sapelo2
vcf2diploid	0.2.6a	Chemistry	Sapelo2
vcf2phylip	1.5	Bioinformatics	Sapelo2
vcflib	1.0.0-rc1	Bioinformatics	Sapelo
vcflib	20180410	Bioinformatics	Sapelo2
vcftools	0.1.12b	Bioinformatics	Sapelo
VCFtools	0.1.15	Bioinformatics	Sapelo2
VCFtools	0.1.15	Bioinformatics	Teaching
velvet	1.2.10	Bioinformatics	Sapelo
Velvet	1.2.10	Bioinformatics	Sapelo2
Velvet	1.2.10	Bioinformatics	Teaching
ViennaRNA	2.1.3	Bioinformatics	Sapelo
ViennaRNA	2.4.3, 2.4.6	Bioinformatics	Sapelo2
viromescan	05292017	Bioinformatics	Sapelo
Vmatch	2.3.0	Bioinformatics	Sapelo2
voxnet	0.1	Other	Sapelo
vsearch	1.10.1	Bioinformatics	Sapelo
VSEARCH	2.8.1	Bioinformatics	Sapelo2
wgs	8.2	Bioinformatics	Sapelo
WGS	8.3rc2	Bioinformatics	Sapelo2
whatshap	0.12	Bioinformatics	Sapelo
WinHap	2.0	Bioinformatics	Sapelo
WPS	3.6, 3.6.1, 3.7, 3.8	Other	Sapelo
WPS	3.8	Other	Sapelo2
WRF-Chem	3.6.1, 3.8	Other	Sapelo
WRF-Chem	3.6.1, 3.8.0	Other	Sapelo2
WRF-Fire	20170221	Other	Sapelo2
WRF	3.6, 3.6.1, 3.7, 3.8	Other	Sapelo
WRF	3.6.1, 3.8.0	Other	Sapelo2
WU Blast	2.2.6	Bioinformatics	Sapelo
WU Blast	2.2.6	Bioinformatics	Sapelo2
Xander_assembler	7/12/2016	Bioinformatics	Sapelo
xforms	1.2.4	Graphics	Sapelo2
YAHA	0.1.83	Bioinformatics	Sapelo
YASRA	2.33	Bioinformatics	Sapelo
YASRA	2.33	Bioinformatics	Sapelo2
yt	3.2.3	Other	Sapelo
Zbar	0.10	Graphics	Sapelo
zlib	1.2.5, 1.2.8	Library	Sapelo

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-| [[BCFtools-Sapelo2|BCFtools]] || 1.3.1, 1.6, 1.8, 1.9 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Sapelo2|Sapelo2]] || [[File:Up20.png|20px|link=#top]]
+| [[BCFtools-Sapelo2|BCFtools]] || 1.1, 1.3.1, 1.6, 1.8, 1.9 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Sapelo2|Sapelo2]] || [[File:Up20.png|20px|link=#top]]
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 | [[BCFtools-Teaching|BCFtools]] || 1.3.1, 1.6, 1.8 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Teaching|Teaching]] || [[File:Up20.png|20px|link=#top]]
@@ Line 1,611: / Line 1,611: @@
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-| [[SAMtools-Sapelo2|SAMtools]] || 0.1.19, 1.3.1, 1.6 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Sapelo2|Sapelo2]] || [[File:Up20.png|20px|link=#top]]
+| [[SAMtools-Sapelo2|SAMtools]] || 0.1.19, 1.1, 1.3.1, 1.6 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Sapelo2|Sapelo2]] || [[File:Up20.png|20px|link=#top]]
 |-
 | [[SAMtools-Teaching|SAMtools]] || 1.6, 1.3.1, 0.1.19 || [[:Category:Bioinformatics|Bioinformatics]] || [[:Category:Teaching|Teaching]] || [[File:Up20.png|20px|link=#top]]

Software-old: Difference between revisions

Revision as of 10:45, 19 October 2018

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