fasttreereadyFastTree
Approximately maximum-likelihood phylogenetic trees.
The tool shelf
Popular open-source bioinformatics tools, compiled to WebAssembly so they run entirely client-side, with no install or setup. Every tool here is the real upstream binary, ported via biowasm.
Phylogenetics
Assembly
gfatoolsreadygfatools
Work with assembly graphs in GFA.
Text
coreutilsreadyGNU coreutils
The essential text utilities: cat, cut, sort, uniq, wc, paste, and more.
grepreadygrep
Search text for lines matching a pattern or regular expression.
gawkreadyawk (gawk)
A programmable language for processing columns and fields of text.
sedreadysed
A stream editor for find-and-replace and line transformations.
Alignment
samtoolsreadySAMtools
Read, write, sort, and index SAM/BAM/CRAM alignment files.
minimap2readyminimap2
Versatile long-read and assembly aligner.
mafftreadyMAFFT
Multiple sequence alignment, the field's default.
musclereadyMUSCLE
Multiple sequence alignment with MUSCLE 5.
kalignreadyKalign
Fast multiple sequence alignment.
seq-alignreadyseq-align
Pairwise alignment: Needleman-Wunsch and Smith-Waterman.
bowtie2-align-sreadyBowtie 2
Short-read aligner, the one the practicals name.
embossreadyEMBOSS
Needle, water, stretcher, transeq and seqret: the classic suite, ported here.
Variants
bcftoolsreadyBCFtools
Call, filter, and query variants in VCF/BCF files.
Sequences
seqtkreadyseqtk
Fast, lightweight processing of FASTA/FASTQ sequences.
wgsimreadywgsim
Simulate sequencing reads from a reference.
Intervals
bedtoolsreadybedtools
Genome arithmetic: intersect, merge, and compare interval sets.
gffreadreadygffread
Convert and filter GFF/GTF, extract transcript sequences.
Quality
fastpreadyfastp
All-in-one FASTQ quality control, trimming, and filtering.
Want a tool that isn't here yet? The catalog is defined in one manifest: adding a biowasm package makes it runnable across every lesson.