|
« Back to VersTracker
|
All Categories
|
All Tags
|
Related:
genomics
cli
sequencing
alignment
visualization
scientific-computing
sequence-alignment
sequence-analysis
biology
phylogenetics
|
| Package |
Description |
Version |
|
igv
☆
cask
|
Visual exploration of genomic data |
2.18.0 |
|
igv
☆
formula
|
Interactive Genomics Viewer |
2.19.7 |
|
igv-desktop
☆
cask
|
Visual exploration of genomic data |
2.19.8 |
|
jalview
☆
cask
|
Multiple sequence alignment editor, visualiser, analysis and figure generator |
2.11.5.1 |
|
jbrowse
☆
cask
|
Genome browser |
4.3.0 |
|
jellyfish
☆
formula
|
Fast, memory-efficient counting of DNA k-mers |
|
|
kalign
☆
formula
|
Fast multiple sequence alignment program for biological sequences |
|
|
kallisto
☆
formula
|
Quantify abundances of transcripts from RNA-Seq data |
|
|
kraken2
☆
formula
|
Taxonomic sequence classification system |
2.17.1 |
|
lastz
☆
formula
|
Pairwise aligner for DNA sequences |
|
|
libdivsufsort
☆
formula
|
Lightweight suffix-sorting library |
|
|
libsbol
☆
formula
|
Read and write files in the Synthetic Biology Open Language (SBOL) |
|
|
mafft
☆
formula
|
Multiple alignments with fast Fourier transforms |
|
|
mega
☆
cask
|
Molecular evolution statistical analysis and construction of phylogenetic trees |
12.1.2 |
|
minigraph
☆
formula
|
Proof-of-concept seq-to-graph mapper and graph generator |
|
|
minimap2
☆
formula
|
Versatile pairwise aligner for genomic and spliced nucleotide sequences |
|
|
miniprot
☆
formula
|
Align proteins to genomes with splicing and frameshift |
|
|
mmseqs2
☆
formula
|
Software suite for very fast sequence search and clustering |
18-8cc5c |
|
mrbayes
☆
formula
|
Bayesian inference of phylogenies and evolutionary models |
3.2.7a |
|
mummer
☆
formula
|
Genome alignment tool |
|
|
nextflow
☆
formula
|
Reproducible scientific workflows |
|
|
pangene
☆
formula
|
Construct pangenome gene graphs |
|
|
perbase
☆
formula
|
Fast and correct perbase BAM/CRAM analysis |
|
|
picard-tools
☆
formula
|
Tools for manipulating HTS data and formats |
|
|
polypolish
☆
formula
|
Short-read polishing tool for long-read assemblies |
|
|
primer3
☆
formula
|
Program for designing PCR primers |
|
|
prodigal
☆
formula
|
Microbial gene prediction |
|
|
proteinortho
☆
formula
|
Detecting orthologous genes within different species |
|
|
pymol
☆
formula
|
Molecular visualization system |
3.1.0 |
|
rasusa
☆
formula
|
Randomly subsample sequencing reads or alignments |
|
|
raxml-ng
☆
formula
|
RAxML Next Generation: faster, easier-to-use and more flexible |
|
|
rna-star
☆
formula
|
RNA-seq aligner |
2.7.11b |
|
ropebwt3
☆
formula
|
BWT construction and search |
|
|
sambamba
☆
formula
|
Tools for working with SAM/BAM data |
|
|
samtools
☆
formula
|
Tools for manipulating next-generation sequencing data |
|
|
seqan3
☆
formula
|
Modern C++ library for sequence analysis |
11 |
|
seqkit
☆
formula
|
Cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang |
2.12.0 |
|
seqtk
☆
formula
|
Toolkit for processing sequences in FASTA/Q formats |
|
|
sickle
☆
formula
|
Windowed adaptive trimming for FASTQ files using quality |
|
|
skani
☆
formula
|
Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs |
|
|
snakefmt
☆
formula
|
Snakemake code formatter |
0.11.2 |
|
snakemake
☆
formula
|
Pythonic workflow system |
9.14.5 |
|
spades
☆
formula
|
De novo genome sequence assembly |
4.2.0 |
|
sprocket
☆
formula
|
Bioinformatics workflow engine built on the Workflow Description Language (WDL) |
0.19.0 |
|
sratoolkit
☆
formula
|
Data tools for INSDC Sequence Read Archive |
|
|
stringtie
☆
formula
|
Transcript assembly and quantification for RNA-Seq |
|
|
sylph
☆
formula
|
Ultrafast taxonomic profiling and genome querying for metagenomic samples |
|
|
tabixpp
☆
formula
|
C++ wrapper to tabix indexer |
|
|
trimal
☆
formula
|
Automated alignment trimming in large-scale phylogenetic analyses |
|
|
unipro-ugene
☆
cask
|
Free open-source cross-platform bioinformatics software |
53.1 |