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 |
|
| Exonerate |
2.4.0 |
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 |
|
| HISAT2 |
2.1.0 |
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 |
|
| KmerGenie |
1.7044 |
Bioinformatics |
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 |
|
| QIIME2 |
2018.4, 2018.6 |
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 |
|
| StringTie |
1.3.3 |
Bioinformatics |
Teaching |
|
| TopHat |
2.1.1 |
Bioinformatics |
Teaching |
|
| Trimmomatic |
0.36 |
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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