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gseapy
|
public |
Gene Set Enrichment Analysis in Python.
|
2025-03-01 |
|
bbmap
|
public |
BBMap is a short read aligner, as well as various other bioinformatic tools.
|
2025-02-28 |
|
igv
|
public |
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics
data and annotations.
|
2025-02-28 |
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colorbrewer
|
public |
An easy way to get access to ColorBrewer schemes from within a Python program.
|
2025-02-27 |
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vsearch
|
public |
A versatile open source tool for metagenomics (USEARCH alternative)
|
2025-02-27 |
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bracken
|
public |
Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species in DNA sequences from a metagenomics sample.
|
2025-02-26 |
|
pbmm2
|
public |
A minimap2 frontend for PacBio native data formats
|
2025-02-26 |
|
sambamba
|
public |
Tools for working with SAM/BAM data
|
2025-02-26 |
|
pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
|
2025-02-26 |
|
lima
|
public |
lima - The PacBio Barcode Demultiplexer
|
2025-02-26 |
|
megan
|
public |
A tool for studying the taxonomic content of a set of DNA reads
|
2025-02-26 |
|
oases
|
public |
No Summary
|
2025-02-26 |
|
kma
|
public |
KMA is a mapping method designed to map raw reads directly against redundant databases, in an ultra-fast manner using seed and extend.
|
2025-02-26 |
|
ivar
|
public |
iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
|
2025-02-26 |
|
bandage
|
public |
Bandage - a Bioinformatics Application for Navigating De novo Assembly Graphs Easily.
|
2025-02-26 |
|
salmon
|
public |
Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
|
2025-02-26 |
|
pairtools
|
public |
CLI tools to process mapped Hi-C data.
|
2025-02-26 |
|
yara
|
public |
Yara is an exact tool for aligning DNA sequencing reads to reference genomes.
|
2025-02-25 |
|
aragorn
|
public |
ARAGORN, tRNA (and tmRNA) detection
|
2025-02-25 |
|
mob_suite
|
public |
MOB-suite is a set of tools for finding, typing and reconstruction of plasmids from draft and complete genome assemblies.
|
2025-02-25 |
|
kneaddata
|
public |
KneadData is a tool designed to perform quality control on metagenomic sequencing data.
|
2025-02-25 |
|
trinity
|
public |
Trinity assembles transcript sequences from Illumina RNA-Seq data.
|
2025-02-24 |
|
freebayes
|
public |
Bayesian haplotype-based polymorphism discovery and genotyping.
|
2025-02-24 |
|
lastz
|
public |
LASTZ is a program for aligning DNA sequences, a pairwise aligner.
|
2025-02-24 |
|
star-fusion
|
public |
STAR-Fusion fusion variant caller. All dependencies required to run FusionInspector and FusionAnnotator are included.
|
2025-02-24 |
|
gridss
|
public |
GRIDSS: the Genomic Rearrangement IDentification Software Suite
|
2025-02-24 |
|
perl-sereal-encoder
|
public |
Fast, compact, powerful binary serialization
|
2025-02-24 |
|
perl-sereal-decoder
|
public |
Fast, compact, powerful binary deserialization
|
2025-02-24 |
|
perl-bio-db-hts
|
public |
Read files using HTSlib including BAM/CRAM, Tabix and BCF database files
|
2025-02-24 |
|
pantools
|
public |
PanTools is a pangenomic toolkit for comparative analysis of large numbers of genomes.
|
2025-02-24 |
|
spades
|
public |
SPAdes (St. Petersburg genome assembler) is intended for both standard isolates and single-cell MDA bacteria assemblies.
|
2025-02-23 |
|
vcflib
|
public |
Command-line tools for manipulating VCF files.
|
2025-02-19 |
|
perl-template-toolkit
|
public |
Comprehensive template processing system.
|
2025-02-19 |
|
libssw
|
public |
An SIMD Smith-Waterman C/C++/Python/Java Library for Use in Genomic Applications.
|
2025-02-19 |
|
quast
|
public |
Quality Assessment Tool for Genome Assemblies
|
2025-02-19 |
|
perl-specio
|
public |
Type constraints and coercions for Perl
|
2025-02-19 |
|
kraken2
|
public |
Kraken2 is a system for assigning taxonomic labels to short DNA sequences, usually obtained through metagenomic studies.
|
2025-02-18 |
|
gappa
|
public |
Genesis Applications for Phylogenetic Placement Analysis
|
2025-02-18 |
|
r-stitch
|
public |
STITCH - Sequencing To Imputation Through Constructing Haplotypes.
|
2025-02-18 |
|
perl-error
|
public |
Error/exception handling in an OO-ish way
|
2025-02-18 |
|
hmftools-purple
|
public |
PURPLE is a purity ploidy estimator for tumor samples.
|
2025-02-18 |
|
fastahack
|
public |
No Summary
|
2025-02-17 |
|
hmftools-cobalt
|
public |
Calculate read-depth counts and GC ratios to use in PURPLE.
|
2025-02-17 |
|
hmftools-amber
|
public |
Generates a tumor BAF file for use in PURPLE.
|
2025-02-17 |
|
truvari
|
public |
Structural variant comparison tool for VCFs
|
2025-02-16 |
|
sevenbridges-python
|
public |
SBG API python client bindings
|
2025-02-16 |
|
pronto
|
public |
Python frontend to ontologies.
|
2025-02-16 |
|
ucsc-cell-browser
|
public |
A browser for single-cell data, main site at http://cells.ucsc.edu. UCSC Cellbrowser, an interactive browser for single cell data. Includes importers and basic pipelines for text files, Seurat, Scanpy and Cellranger. All Javascript - does not require a server backend.
|
2025-02-14 |
|
macs2
|
public |
Model Based Analysis for ChIP-Seq data
|
2025-02-14 |
|
t-coffee
|
public |
A collection of tools for Multiple Alignments of DNA, RNA, Protein Sequence
|
2025-02-14 |
