'UNSW - Science

UNSW - Science - HPC

Bioscience Related Software Available via the Module Command

The following bioscience software has been installed on Katana and is available via the module command. Lists of other types of software can be seen using the menu on the left. For a complete list of module software visit the software modules page.

Software Name Version
454 2.9 454 2.9
ABRicate 0.4 ABRicate 0.4
abyss 1.3.7 abyss 1.3.7
abyss 1.5.2 abyss 1.5.2
abyss 2.0.2 abyss 2.0.2
AMOS 3.1.0 AMOS 3.1.0
AMOS 7 AMOS 7
antiSMASH 2.0.2 antiSMASH 2.0.2
antiSMASH 3.0.5.1 antiSMASH 3.0.5.1
arb 6.0.6 arb 6.0.6
Augustus 3.02 Augustus 3.02
Augustus 3.2.2 Augustus 3.2.2
BAMTools 2.3.0 BAMTools 2.3.0
BAMTools 2.4.1 BAMTools 2.4.1
Bandage 0.8.0 Bandage 0.8.0
BARRNAP 0.3 BARRNAP 0.3
BARRNAP 0.7 BARRNAP 0.7
BBMap 35.82 BBMap 35.82
bcl2fastq 2.18.0.12 bcl2fastq 2.18.0.12
BEAGLE 2.1.2 BEAGLE 2.1.2
BEAST 1.8.0 BEAST 1.8.0
BEAST 1.8.2 BEAST 1.8.2
BEAST 1.8.3 BEAST 1.8.3
BEDTools 2.19.0 BEDTools 2.19.0
BEDTools 2.26.0 BEDTools 2.26.0
BioPerl 1.6.901 BioPerl 1.6.901
BioPerl 1.6.924 BioPerl 1.6.924
BioPython 1.61 BioPython 1.61
BioPython 1.62 BioPython 1.62
BioPython 1.64 BioPython 1.64
BioPython 1.65 BioPython 1.65
BioPython 1.65-python-2.7.10 BioPython 1.65-python-2.7.10
BioPython 1.68 BioPython 1.68
BioPython 2.7.12 BioPython 2.7.12
BLAT 35 BLAT 35
Bowtie 1.0.0 Bowtie 1.0.0
Bowtie 2.1.0 Bowtie 2.1.0
Bowtie 2.2.1 Bowtie 2.2.1
Bowtie 2.2.3 Bowtie 2.2.3
Bowtie 2.2.4 Bowtie 2.2.4
Bowtie 2.2.9 Bowtie 2.2.9
Bowtie 2.3.2 Bowtie 2.3.2
BratNextGen 20150505 BratNextGen 20150505
BUSCO 1.1b1 BUSCO 1.1b1
BUSCO 1.22 BUSCO 1.22
BUSCO 2.0 BUSCO 2.0
BUSCO 2.0.1 BUSCO 2.0.1
BWA 0.7.12 BWA 0.7.12
BWA 0.7.15 BWA 0.7.15
BWA 0.7.7 BWA 0.7.7
CAFTools 2.0.2 CAFTools 2.0.2
Canu 1.1 Canu 1.1
Canu 1.3 Canu 1.3
Canu 1.4 Canu 1.4
Canu 1.5 Canu 1.5
CD-HIT 4.6.4 CD-HIT 4.6.4
CEAS 1.0.2 CEAS 1.0.2
Celera Assembler 8.2 Celera Assembler 8.2
Clustal Omega 1.2.0 Clustal Omega 1.2.0
Clustal Omega 1.2.2 Clustal Omega 1.2.2
Clustal W 2.1 Clustal W 2.1
COGsoft 2012-04-19 COGsoft 2012-04-19
ContextMap 2.2.1 ContextMap 2.2.1
Copyrighter 0.46 Copyrighter 0.46
CRAC 1.5.0 CRAC 1.5.0
Cufflinks 2.1.1 Cufflinks 2.1.1
Cufflinks 2.2.1 Cufflinks 2.2.1
dbOTUcaller 2.0 dbOTUcaller 2.0
Diamond 0.8.1 Diamond 0.8.1
Diamond 0.8.4 Diamond 0.8.4
Diamond v0.8.1 Diamond v0.8.1
DISCOVAR 52488 DISCOVAR 52488
discrover 1.6.0 discrover 1.6.0
EMBOSS 6.5.7 EMBOSS 6.5.7
EMIRGE 0.5.0 EMIRGE 0.5.0
EVidenceModeler (EVM) 1.1.1 EVidenceModeler (EVM) 1.1.1
Evolving Objects 1.3.1 Evolving Objects 1.3.1
Exonerate 2.2.0 Exonerate 2.2.0
falcon 0.5.0 falcon 0.5.0
falcon 1.7.5 falcon 1.7.5
falcon 1.8.2 falcon 1.8.2
falcon 1.8.6 falcon 1.8.6
FASTA 36.3.8d FASTA 36.3.8d
fastLSA 1.0 fastLSA 1.0
FastML 3.1 FastML 3.1
FastML with Gubbins 2.3 FastML with Gubbins 2.3
FastQC 0.10.1 FastQC 0.10.1
FastTree 2.1.7 FastTree 2.1.7
FASTX 0.0.13.2 FASTX 0.0.13.2
FASTX 0.0.14 FASTX 0.0.14
FragGeneScan 1.3.0 FragGeneScan 1.3.0
FreeBayes 0.9.21 FreeBayes 0.9.21
FSA 1.15.7 FSA 1.15.7
funannotate 0.6.0 funannotate 0.6.0
funannotate 0.6.2 funannotate 0.6.2
GAA 1.1 GAA 1.1
GAG (Genome Annotation Generator) 2016-08-18 GAG (Genome Annotation Generator) 2016-08-18
GAM-NGS 1.1b GAM-NGS 1.1b
GapFiller 1.11 GapFiller 1.11
GARM 0.7.3 GARM 0.7.3
GARM 0.7.5 GARM 0.7.5
genemark-es 2.3f genemark-es 2.3f
genemark-es 4.21 genemark-es 4.21
genemark-es 4.33 genemark-es 4.33
GenomeTools 1.5.9 GenomeTools 1.5.9
Glimmer 3.02 Glimmer 3.02
GMAP 2014-02-20 GMAP 2014-02-20
GMAP 2014-12-28 GMAP 2014-12-28
GMAP 2017-04-13 GMAP 2017-04-13
GUBBINS 1.3.3 GUBBINS 1.3.3
HapCol 1.1.1 HapCol 1.1.1
HISAT2 2.0.3b HISAT2 2.0.3b
HISAT2 2.0.5 HISAT2 2.0.5
HMMER 2.3.2 HMMER 2.3.2
HMMER 3.0 HMMER 3.0
HMMER 3.1b1 HMMER 3.1b1
HMMER 3.1b2 HMMER 3.1b2
hs-blastn 0.0.5 hs-blastn 0.0.5
HYB 0.1 HYB 0.1
icorn 2 icorn 2
IDBA 1.1.1 IDBA 1.1.1
IDBA 1.1.1_512 IDBA 1.1.1_512
IDBA 1.1.3 IDBA 1.1.3
IGV 2.3.32 IGV 2.3.32
IGV 2.3.57 IGV 2.3.57
IMAGE 2.4.1 IMAGE 2.4.1
Infernal 1.1 Infernal 1.1
Infernal 1.1.1 Infernal 1.1.1
IntaRNA 1.2.5 IntaRNA 1.2.5
InteMAP 1.0 InteMAP 1.0
InterProScan 5.11-51.0 InterProScan 5.11-51.0
InterProScan 5.15-54.0 InterProScan 5.15-54.0
InterProScan 5.17-56.0 InterProScan 5.17-56.0
InterProScan 5.8-49.0 InterProScan 5.8-49.0
ITSx 1.0.11 ITSx 1.0.11
Jellyfish 1.1.11 Jellyfish 1.1.11
Jellyfish 2.2.3 Jellyfish 2.2.3
Kaiju 1.5.0 Kaiju 1.5.0
Kraken 0.10.5-beta Kraken 0.10.5-beta
leeHom 20161005 leeHom 20161005
lobstr 3.0.3 lobstr 3.0.3
longranger 2.1.3 longranger 2.1.3
MAFFT 7.130 MAFFT 7.130
MAFFT 7.310 MAFFT 7.310
Maker 2.31.6 Maker 2.31.6
Maker 2.31.9 Maker 2.31.9
MaxBin 2.2.3 MaxBin 2.2.3
MEGA 7.0.26-1 MEGA 7.0.26-1
MEGAHIT 1.0.6 MEGAHIT 1.0.6
MEGAHIT 1.1.1 MEGAHIT 1.1.1
MEGAN 4.70.4 MEGAN 4.70.4
MEGAN 5.7.0 MEGAN 5.7.0
MEGAN 6.4.5 MEGAN 6.4.5
MEME 4.9.1 MEME 4.9.1
Metabat 0.25.4 Metabat 0.25.4
Metabat 0.26.3 Metabat 0.26.3
Metabat 0.32.4 Metabat 0.32.4
Metabat 2.10.2 Metabat 2.10.2
MetaCluster-TA 1.2.1 MetaCluster-TA 1.2.1
Metassembler 1.5 Metassembler 1.5
MetaVelvet 1.2.02 MetaVelvet 1.2.02
MetaVelvetSL 1.0 MetaVelvetSL 1.0
Metaxa2 2.1.1 Metaxa2 2.1.1
Migrate-n 3.6.5 Migrate-n 3.6.5
MinCED 0.2.0 MinCED 0.2.0
ModelGenerator 85.1 ModelGenerator 85.1
Mosaik 2.2.3 Mosaik 2.2.3
Mothur 1.31.1 Mothur 1.31.1
Mothur 1.33.3 Mothur 1.33.3
Mothur 1.34.1 Mothur 1.34.1
Mothur 1.35.0 Mothur 1.35.0
Mothur 1.35.0.duncan Mothur 1.35.0.duncan
Mothur 1.36.0 Mothur 1.36.0
Mothur 1.37.0 Mothur 1.37.0
Mothur 1.37.3 Mothur 1.37.3
Mothur 1.39.1 Mothur 1.39.1
MotifHound 130801 MotifHound 130801
MrBayes 3.2.2 MrBayes 3.2.2
MrBayes 3.2.4 MrBayes 3.2.4
MrBayes 3.2.5 MrBayes 3.2.5
MrBayes 3.2.6 MrBayes 3.2.6
MrModeltest2 2.3 MrModeltest2 2.3
MUMmer 3.23 MUMmer 3.23
MUSCLE 3.8.31 MUSCLE 3.8.31
MyCC 20150710 MyCC 20150710
NCBI BLAST+ 2.2.29 NCBI BLAST+ 2.2.29
NCBI BLAST+ 2.2.30 NCBI BLAST+ 2.2.30
NCBI BLAST+ 2.2.31 NCBI BLAST+ 2.2.31
NCBI BLAST+ 2.6.0 NCBI BLAST+ 2.6.0
NCBI NSEG 2000 NCBI NSEG 2000
NCBI RMBlast 2.2.28 NCBI RMBlast 2.2.28
NCBI RMBlast 2.6.0 NCBI RMBlast 2.6.0
Novocraft 3.04.06 Novocraft 3.04.06
PAGAN 0.47 PAGAN 0.47
PAGIT 1 PAGIT 1
Panseq 2016 Panseq 2016
Pblat 1.6 Pblat 1.6
PeakRanger 1.18 PeakRanger 1.18
PhiSpy 3.2 PhiSpy 3.2
Phobius 1.01 Phobius 1.01
PHYLIP 3.695 PHYLIP 3.695
PhyloBayes-MPI 20161021 PhyloBayes-MPI 20161021
PhyloCSF 20150714 PhyloCSF 20150714
PhyloSift 1.0.1 PhyloSift 1.0.1
PhyML 20120412 PhyML 20120412
Picard 1.109 Picard 1.109
Piranha 1.2.1 Piranha 1.2.1
pplacer 1.1.alpha16 pplacer 1.1.alpha16
PRANK 150803 PRANK 150803
PrinSeq 0.20.4 PrinSeq 0.20.4
prodigal 2.6.1 prodigal 2.6.1
prodigal 2.6.2 prodigal 2.6.2
prodigal 2.6.3 prodigal 2.6.3
Prokka 1.11 Prokka 1.11
Prokka 1.12 Prokka 1.12
Prokka 1.7 Prokka 1.7
Proteinortho 5.15 Proteinortho 5.15
QIIME 1.8.0 QIIME 1.8.0
Quake 0.3.5 Quake 0.3.5
QUAST 4.3 QUAST 4.3
QUAST 4.5 QUAST 4.5
quickmerge 0.2 quickmerge 0.2
R 3.0 R 3.0
raxml 8.0.14 raxml 8.0.14
raxml 8.1.17 raxml 8.1.17
raxml 8.2.10 raxml 8.2.10
raxml 8.2.8 raxml 8.2.8
ray 2.3.1 ray 2.3.1
recon 1.08 recon 1.08
repeatmasker 4.0.5 repeatmasker 4.0.5
repeatmasker 4.0.6 repeatmasker 4.0.6
repeatmasker 4.0.7 repeatmasker 4.0.7
RepeatModeler 1.0.10 RepeatModeler 1.0.10
RepeatModeler 1.0.8 RepeatModeler 1.0.8
repeatscout 1.05 repeatscout 1.05
RNAmmer 1.2 RNAmmer 1.2
Roary 3.5.7 Roary 3.5.7
Rosetta 3.7 Rosetta 3.7
RSEM 1.3.0 RSEM 1.3.0
SAMtools 0.1.19 SAMtools 0.1.19
SAMtools 1.1 SAMtools 1.1
SAMtools 1.1-static-htslib SAMtools 1.1-static-htslib
SAMtools 1.2 SAMtools 1.2
SAMtools 1.2-static-htslib SAMtools 1.2-static-htslib
SAMtools 1.3.1 SAMtools 1.3.1
SAMtools 1.3.1-static-htslib SAMtools 1.3.1-static-htslib
SAMtools 1.5 SAMtools 1.5
Scythe 20141018 Scythe 20141018
Sets up gs454 2.9 Sets up gs454 2.9
SGA 0.10.15 SGA 0.10.15
shrinksam 0.9.0 shrinksam 0.9.0
Sickle 1.21 Sickle 1.21
SignalP 4.1 SignalP 4.1
SMART 06-08-2012 SMART 06-08-2012
SMRT Analysis 2.3.0 SMRT Analysis 2.3.0
SMRT Analysis 2.3.0+ SMRT Analysis 2.3.0+
SMRT Analysis 2.3.0u SMRT Analysis 2.3.0u
SMRT Link 3.1.1 SMRT Link 3.1.1
SNAP 2013-11-29 SNAP 2013-11-29
Snippy 2.5 Snippy 2.5
SolexaQA 3.1.7.1 SolexaQA 3.1.7.1
SPAdes 3.0.0 SPAdes 3.0.0
SPAdes 3.1.0 SPAdes 3.1.0
SPAdes 3.10.1 SPAdes 3.10.1
SPAdes 3.5.0 SPAdes 3.5.0
SPAdes 3.6.1 SPAdes 3.6.1
SPAdes 3.7.0 SPAdes 3.7.0
SPAdes 3.9.0 SPAdes 3.9.0
SRAtoolkit 2.3.4 SRAtoolkit 2.3.4
STAR 2.4.1d STAR 2.4.1d
StringTie 1.2.3 StringTie 1.2.3
Supernova 1.1.5 Supernova 1.1.5
Supernova 1.2.0 Supernova 1.2.0
TBL2ASN 23.2 TBL2ASN 23.2
TBL2ASN 24.3 TBL2ASN 24.3
TBL2ASN 24.9 TBL2ASN 24.9
TBL2ASN 25.3 TBL2ASN 25.3
TMHMM 2.0c TMHMM 2.0c
TopHat 2.0.13 TopHat 2.0.13
TopHat 2.0.8b TopHat 2.0.8b
TopHat 2.1.1 TopHat 2.1.1
TransDecoder 2.0.1 TransDecoder 2.0.1
TRF - Tandem Repeats Finder 4.07b TRF - Tandem Repeats Finder 4.07b
TRF - Tandem Repeats Finder 4.09 TRF - Tandem Repeats Finder 4.09
trimAl 1.4.1 trimAl 1.4.1
Trimmomatic 0.33 Trimmomatic 0.33
Trinity 2.0.3 Trinity 2.0.3
Trinity 2.0.6 Trinity 2.0.6
Trinity 2013-11-10 Trinity 2013-11-10
Trinity 2014-07-17 Trinity 2014-07-17
Trinotate 2.0.1 Trinotate 2.0.1
Trinotate 20140708 Trinotate 20140708
tRNAscan-SE 1.3.1 tRNAscan-SE 1.3.1
UNAFold 3.9-1 UNAFold 3.9-1
UProC 1.2.0 UProC 1.2.0
USEARCH 6.1.544 USEARCH 6.1.544
USEARCH 7.0.1090 USEARCH 7.0.1090
USEARCH 8.0.1623 USEARCH 8.0.1623
USEARCH 8.1.1861 USEARCH 8.1.1861
USEARCH 9.0.2132 USEARCH 9.0.2132
VariantBam 1.2.0 VariantBam 1.2.0
vcflib 20150314 vcflib 20150314
VCFtools 0.1.14 VCFtools 0.1.14
Velvet 1.2.10 Velvet 1.2.10
ViennaRNA 1.8.5 ViennaRNA 1.8.5
VSEARCH 1.11.1 VSEARCH 1.11.1
Zagros 1.0.0 Zagros 1.0.0