| Image File | Description | @ Github | Provides | Definition File | Archive |
|---|---|---|---|---|---|
| sra.sif | SRAassembler | SRAssembler | SRAssembler SOAPdenovo2 ABySS Vmatch BLAST+ GeneSeqer GenomeThreader SNAP bioawk Samtools BOWTIE IGV MUSCLE |
sra.def | archived versions |
| SNPat.sif | SNP analysis tools | GATK SNPGenie freebayes BISCUIT biscuiteer BS-SNPer SRAtoolkit UMI-tools FastQC Samtools AGAT GFFRead bedtools samblaster bcftools vcftools cyvcf2 |
SNPat.def | archived versions | |
| FMAB.sif | tools used in Fundamental Models and Algorithms in Bioinformatics classes | BLAST+ Vmatch | FMAB.def | archived versions | |
| mRNAmarkup.sif | mRNAmarkup | mRNAmarkup | mRNAmarkup BLAST+ MuSeqBox | mRNAmarkup.def | archived versions |
| bwasp.sif | BWASP | BWASP | BWASP | bwasp.def | archived versions |
| bwaspr.sif | BWASPR | BWASPR | BWASPR | bwaspr.def | archived versions |
| AllRice.sif | Software for (rice) genome analyses | AllRice | FastQC Trimmomatic Porechop NanoFilt SRAtoolkit UMI-tools Samtools SeqKit Flye MaSuRCA Wengan Pilon POLCA QuORUM bwa minimpa2 bowtie2 hisat2 STAR jellyfish RagTag rmblast TRF RepeatMasker R pafr RSEM EBseq DESeq2 BLAST+ MuSeqBox Vmatch GenomeThreader GenomeTools MUMmer ngsutilsj assembly-stats ufasta |
AllRice.def | archived versions |
| DDN.sif | DiscovarDeNovo | AllRice | DiscovarDeNovo | DDN.def | archived versions |