Software Modules

4 minute read

The following packages are available on the cluster as modules.

To load the default version of a module, use: module load [package]

To load a specific version of a module, use: module load [package]/[version]

To view this list at the command line, use: module avail

Package NameVersions
AAFTF0.3.0
abyss2.3.4
alphafold2.1.2
amptk1.5
anaconda2021.11-py39_0
angsd0.937
ant1.10.12
antismash5.1.2
antismash6.0.0
arcs1.2.3
aspera3.6.0
ASTRAL-Pro1.1.3
ASTRAL4.7.8
ASTRAL4.7.12
ASTRAL4.10.7
ASTRAL4.10.12
ASTRAL5.5.6
ASTRAL5.6.1
ASTRAL5.6.3
ASTRAL5.7.1
ASTRAL5.14.3
ASTRAL5.15.4
augustus3.3.3
augustus3.4.0
autometa1.0.3
autometa2.0.2
bamtools2.5.2
bat0.18.3
BBMap38.95
bcftools1.15
bcl2fastq2.20.0.422
beagle-lib3.1.2
beast1.10.4
beast2.6.6
bedops2.4.40
bedtools2.29.1
bioperl1.7
bioperl1.7.8
blobtools1.1.1
blobtools23.1.0
boost1.78.0
bowtie1.3.1
bowtie22.4.5
busco5.3.0
busco5.3.2
bwa0.7.17
canu2.2
cap32005.06.07.amd64
cap32005.06.07.intel
cap32015-02-10
cblaster1.3.12
cd-hit4.8.1
centos7.9
cgal0.9.6
clinker1.3.12
clipkit1.3.0
CodingQuarry2.0
cp2k7.1_oneapi-2022.1.2.146
cuda10.2
cuda11.4
cufflinks2.2.1
cutadapt3.7
db-cazy3.0
db-cazy4.0
db-cazy5.0
db-cazy9.0(default)
db-checkv0.6
db-diamond20161103
db-diamond20190125
db-diamond20210403(default)
db-kaiju20170113-e
db-merops110
db-merops120(default)
db-merops2017-02-02
db-ncbi20140623
db-ncbi20150112
db-ncbi20160708
db-ncbi20170707
db-ncbi20171212
db-ncbi20190121
db-ncbi20190709
db-ncbi20190805(default)
db-ncbi20220131
db-ncbiv5.20190517
db-panther10.0(default)
db-panther13.1
db-pfam27.0
db-pfam28.0
db-pfam30.0
db-pfam31.0
db-pfam32.0
db-pfam33.0
db-pfam33.1
db-pfam34.0
db-pfam35.0(default)
db-pfam2013-03-14
db-pfam2015-07-27
db-pfam2016-09-15
db-pfam2017-06-11
db-pfam2018-10-18
db-pfam2020-03-19
db-pfam2020-05-05
db-pfam2021-03-19
db-pfam2021-11-25
db-priammar15(default)
db-rfam11.0
db-rfam14.5
db-rfam14.7
db-swissprot2021_01
db-trinotater20150720(default)
db-uniprot2014_12
db-uniprot2015_01
db-uniprot2015_02
db-uniprot2015_03
db-uniprot2015_04
db-uniprot2015_05
db-uniprot2016_11
db-uniprot2018_03(default)
deeptools3.5.1
diamond2.0.13
diamond2.0.14
du-dust0.7.5
eggnog-mapper2.1.7
elpa2020.11.001_oneapi-2022.1.2.146
emboss6.6.0
espresso7.0_oneapi-2022.1.2.146
ete33.1.2
exonerate2.2.0
exonerate2.4.0
extra1
fasta36.3.8h
fastani1.33
fastme2.1.6.3
fastqc0.11.9
fasttree2.1.11
fastx_toolkit0.0.13
ffmpeg5.0
fftw2.1.5
Flye2.9
freefem4.10
funannotate1.8
fzf0.28.0
gadget22.0.7
gadgetviewer1.1.2
gap4.11.1
gatk3
gatk3.3-0
gatk3.3.0
gatk3.4-0
gatk3.4-46
gatk3.4.0
gatk3.4.46
gatk3.5
gatk3.6
gatk3.7
gatk3.8
gatk4
gatk4.0.1.2
gatk4.0.4.0
gatk4.0.8.1
gatk4.0.12.0
gatk4.1.1.0
gatk4.1.4.1
gatk4.1.8.1
gatk4.2.0.0
gatk4.2.5.0
gaussian16
gaussian16_AVX2
gaussian16_SSE4
gcc9.2.1
genemarkESET4.69_lic
genometools1.6.2
gmap2021-12-17
gocryptfs2.2.1
golang1.17.6
gtdbtk2.0.0
hdf51.12.1
hdf51.12.1_oneapi-2022.1.2.146
hic-pro3.1.0
hisat22.1.0
hisat22.2.0
hisat22.2.1
hmmer1.8.5
hmmer2
hmmer2.3.2
hmmer3
hmmer3.3.2
hmmer3.3.2-mpi
hpcc_user_utilscurrent
htslib1.14
htslib1.15
hub2.14.2
igv2.12.3
infernal1.1.4
interproscan5.54-87.0
iprscan5.54-87.0
IQ-TREE1.6.12
IQ-TREE2.1.1
IQ-TREE2.1.1_mpi
IQ-TREE2.1.3
IQ-TREE2.2.0
iqtree1.6.12
iqtree2.1.1
iqtree2.1.1_mpi
iqtree2.1.3
iqtree2.2.0
jags4.3.0
java17.0.2
jbrowse1.16.8
jbrowse21.6.7
jellyfish2.3.0
jemalloc5.2.1
julia1.7.2
jupyterlab3.3.1
kallisto0.46.1
kallisto0.48.0
kent-tools427
libdeflate1.10
LINKS1.8.4
longranger2.2.2
macs22.2.6
macs22.2.7
macs33.0.0a7
mafft7.490
mathematica12.3.1
matlabR2021b
mcl14-137
medaka1.6
medaka1.6-gpu
meme5.4.1
miniconda3py39_4.10.3
miniconda3py39_4.12.0
minimap22.24
MMseqs213-45111
mmseqs213-45111
mosdepth0.3.3
mothur1.47.0
mpich4.0.1
mpich4.0.1_gcc-9.2.1
mummer3.23
mummer4.0.0
muscle3.8.31
muscle5.1
mutt2.1.5
ncbi-asn_tools2022-04-25
ncbi-blast2.2.22+
ncbi-blast2.2.25+
ncbi-blast2.2.26
ncbi-blast2.2.26+
ncbi-blast2.2.29+
ncbi-blast2.2.30+
ncbi-blast2.2.31+
ncbi-blast2.3.0+
ncbi-blast2.4.0+
ncbi-blast2.5.0+
ncbi-blast2.6.0+
ncbi-blast2.7.1+
ncbi-blast2.8.0+
ncbi-blast2.8.1+
ncbi-blast2.9.0+
ncbi-blast2.11.0+
ncbi-blast2.12.0+
ncbi-blast2.13.0+
ncbi-ngs-tools2.11.2
ncbi-rmblast2.11.0
ncbi_datasets13.4.0
ncbi_edirect16.8.20220329
NECAT0.0.1
neovim0.6.0
netcdf-c4.8.1_oneapi-2022.1.2.146
netcdf-fortran4.5.4_onaapi-2022.1.2.146
NextDenovo2.5.0
NextPolish1.4.0
oneapi2022.1.2.146
openbabel3.1.1
openmpi4.1.2
openmpi4.1.2-slurm-19.05.0
openmpi4.1.2_slurm-21.08.5
orthofinder2.5.4
pandoc2.17.1.1
parallel-fastq-dump0.6.7
parallel20220122
PASA2.5.2
pbzip21.1.13
phred-phrap-consed0.990329
phykit1.11
picard2.26.11
pilon1.24
plink1.90b6.25
pmix3.1.3rc2
polypolish0.5.0
primer32.6.1
prodigal2.6.3
prymetime0.2
pyvcf0.6.8
qiime22022.2
quast5.1.0rc1
quickmerge0.3
R4.1.2(default)
R4.1.3
ragtag2.1.0
raxml-ng1.1.0
raxml-ng1.1.0-mpi
RAxML8.2.12
raxml8.2.12
RAxML_NG1.1.0
RAxML_NG1.1.0-mpi
rclone1.58.0
REDUCE_suite2.2
reduce_suite2.2
RepeatMasker4-1-2
RepeatModeler2.0.3
rmate1.5.10
rstudio-server2022.02.0-443
ruby2.7.5
ruby3.1.1
salmon1.7.0
samtools1.14
seqtk1.3
shovill1.1.0
signalp3.0
signalp4.1c
signalp5.0b
signalp6.0g
singularity-ce3.9.3
singularity3.9.3
slurm19.05.0
slurm21.08.5
snpEff4.1G
snpEff4.1K
snpEff4.3m
snpEff4.3P
snpEff4.3r
snpEff4.3t
snpEff5.0e
snpEff5.1
spades3.15.4
sparsehash2.0.4
sratoolkit3.0.0
stacks2.60
star2.7.10a
stringtie2.2.1
subread2.0.3
tbb2020.3
tbb2021.5.0
texlive20210325
texlive20220403
tmhmm2.0c
tmux3.3
tophat2.1.1
transdecoder5.5.0
trf4.09
trim_galore0.6.7
trimal1.4.1
trimmomatic0.39
trinity-rnaseq2.13.2
trinity-rnaseq2.13.2_sing
trnascan-se2.0.9
unimap0.1
usearch8
usearch8.0.1623_32bit
usearch8.1.1861_32bit
usearch9
usearch9.0.2132_i86linux32
usearch9.1.13_i86linux32
usearch9.2.64_i86linux32
usearch10
usearch10.0.240_i86linux32
usearch11
usearch11.0.667_i86linux32
valgrind3.18.1
vasp5.4.1_oneapi-2022.1.2.146
vcftools0.1.16-18
viennarna2.4.17
viennarna2.5.0
vsearch2.21.1
wannier903.1.0_oneapi-2022.1.2.146
workspacescratch
xpdf4.03
yq4.23.1
zoem21-341
Last modified April 28, 2022: Updated list for Rocky (daaacf67)