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Bioinformatics Packages
Bioinformatics Packages
The following bioinformatics packages are available on Sol.
All packages listed here except Bayestraits, Cactus and Guppy are built using SPACK and optimized for AVX, AVX2 and AVX512 CPUs. To use these optimized versions, you need to add source /etc/profile.d/zlmod.sh to your submit script before loading any modules. By default, the AVX2 optimized versions (head node is Haswell CPU) are in your path. The AVX2 optimized applications will run on Skylake (enge, im2080, chem, health) and Cascade Lake (hawkcpu, hawkmem, hawkgpu, infolab) CPUs but not on Ivybridge (debug) CPUs.
- ANGSD
- BamTools
- Bartender
- BayeScan
- BayesTraits
- bgc
- BLAST
- BLAT
- Bowtie
- Bowtie2
- BWA
- Cactus
- Canu
- Exonerate
- eXpress
- Fastqc
- FASTX-Toolkit
- FreeBayes
- GATK
- GMAP
- Guppy
- Hal
- HISAT2
- JELLYFISH
- kallisto
- MaSuRCA
- Miniasm
- Minimap2
- NGMLR
- NGS Tools
- PAML
- PEAR
- PHAST
- Picard
- Pilon
- Porechop
- RELION
- RSEM
- Salmon
- SAM Tools
- SnpEff
- Stacks
- STAR
- Subread
- tabix
- trimmomatic
- Trinity
- VCFTools
, multiple selections available,
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