Software2

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 2018-08-15. 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	Top
4p	1.0	Bioinformatics	Sapelo
4p	1.0	Bioinformatics	Sapelo2
ABySS	2.0.2	Bioinformatics	Sapelo
ABySS	1.9.0, 2.2.2, 2.1.0	Bioinformatics	Sapelo2
AUGUSTUS	3.2.3	Bioinformatics	T2eaching
AUGUSTUS	3.2.3	Bioinformatics	Teaching
Artemis	17.0.1	Bioinformatics	Teaching
BCFtools	1.3.1, 1.6, 1.8	Bioinformatics	Teaching
BEDTools	2.26.0	Bioinformatics	T2eaching
BEDTools	2.26.0	Bioinformatics	Teaching
BLAST+	2.6.0	Bioinformatics	Teaching
BLAST	2.2.26	Bioinformatics	Teaching
bcl2fastq	2.17.1.14	Bioinformatics	Sapelo
BioPerl	1.7.1	Bioinformatics	T2eaching
BioPerl	1.7.1	Bioinformatics	Teaching
Biopython	1.68	Bioinformatics	T2eaching
Biopython	1.68	Bioinformatics	Teaching
Bowtie2	2.2.3, 2.3.3, 2.3.4.1	Bioinformatics	Teaching
Canu	1.4, 1.5, 1.6, 1.7	Bioinformatics	Teaching
Cufflinks	2.2.1	Bioinformatics	Teaching
DBG2OLC	20170208	Bioinformatics	Teaching
EMBOSS	6.6.0	Bioinformatics	Teaching
GAG	2.0.1	Bioinformatics	Teaching
GATK	3.4-0, 3.8-0	Bioinformatics	Teaching
GapFiller	2.1.1	Bioinformatics	Teaching
GeneMarkES	4.33	Bioinformatics	Teaching
Ipyrad	0.7.24	Bioinformatics	Teaching
Java	1.8.0_92, 1.8.0_112, 1.8.0_121, 1.8.0_141, 1.8.0_144	Programming	Teaching
MAFFT	7.130, 7.273, 7.313	Bioinformatics	Teaching
MUMmer	3.23	Bioinformatics	Teaching
OrthoFinder	2.1.2	Bioinformatics	Teaching
PAML	4.9h	Bioinformatics	Teaching
Picard	2.16.0	Bioinformatics	Teaching
Pilon	1.22	Bioinformatics	Teaching
Proovread	2.14.1	Bioinformatics	Teaching
RepeatMasker	4.0.7	Bioinformatics	Teaching
RepeatModeler	1.0.11	Bioinformatics	Teaching
RepeatScout	1.05	Bioinformatics	Teaching
SMRTLINK	5.0.1.9585, 5.1.0.26412	Bioinformatics	T2eaching
SMRTLINK	5.0.1.9585, 5.1.0.26412	Bioinformatics	Teaching
SNAP-Zoe	20060728	Bioinformatics	Teaching
SOAPdenovo2	r240	Bioinformatics	Teaching
SPAdes	3.11.1	Bioinformatics	Teaching
STAR	2.5.3a, 2.6.0c	Bioinformatics	Teaching
SnpEff	4.3t	Bioinformatics	Teaching
TopHat	2.1.1	Bioinformatics	Teaching
Trinity	2.6.6	Bioinformatics	Teaching
VCFtools	0.1.15	Bioinformatics	Teaching
Velvet	1.2.10	Bioinformatics	Teaching
Zbar	0.10	Graphics	Sapelo
zlib	1.2.5, 1.2.8	Library	Sapelo

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