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minute
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public |
MINUTE-ChIP data analysis workflow
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2025-03-25 |
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ifcnv
|
public |
ifCNV: a novel isolation-forest-based package to detect copy number variations from various NGS datasets.
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2025-03-25 |
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titanomics
|
public |
A comprehensive multi-omics data analysis pipeline.
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2025-03-25 |
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bialign
|
public |
Bialignment of RNAs and proteins
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2025-03-25 |
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chiton
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public |
Chiton provides a Python wrapper to commonly used bioinformatics programs.
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2025-03-25 |
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d4binding
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public |
The C/C++ binding for the D4 file format.
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2025-03-25 |
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d4tools
|
public |
The D4 command line utility program
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2025-03-25 |
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annotwg
|
public |
Tool for annotating large VCF files
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2025-03-25 |
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pyfish
|
public |
Plotting tool for evolutionary population dynamics. Creates a Fish (Muller) plot.
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2025-03-25 |
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macs
|
public |
Model Based Analysis for ChIP-Seq data
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2025-03-25 |
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squire
|
public |
Quantitative, locus-specific view of transposable element expression.
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2025-03-25 |
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gfastats
|
public |
The swiss army knife for genome assembly
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2025-03-25 |
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prodigal-gv
|
public |
A fork of Prodigal meant to improve gene calling for giant viruses
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2025-03-25 |
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lepwrap
|
public |
The Snakemake pipeline to use Lep-Map3 to create linkage maps and LepAnchor for anchoring+orienting genome assemblies.
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2025-03-25 |
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pbskera
|
public |
PacBio tool to split concatenated read designs
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2025-03-25 |
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epytope
|
public |
A Framework for Epitope Detection and Vaccine Design
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2025-03-25 |
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goat
|
public |
Query metadata for any taxon across the tree of life.
|
2025-03-25 |
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knotinframe
|
public |
Predicts -1 frameshift sites with simple pseudoknots
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2025-03-25 |
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fq
|
public |
fq is a library to generate and validate FASTQ file pairs.
|
2025-03-25 |
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atlas-fastq-provider
|
public |
A package to provide FASTQs via download or file system linking.
|
2025-03-25 |
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metamlst
|
public |
A computational pipeline for MLST typing from metagenomic data
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2025-03-25 |
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metacerberus
|
public |
Versatile Functional Ontology Assignments for Metagenomes via Hidden Markov Model (HMM) searching with environmental focus of shotgun meta'omics data
|
2025-03-25 |
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theiacov-gc
|
public |
Command-line version of the TheiaCov genomic characterization workflow for SARS-CoV-2.
|
2025-03-25 |
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antismash-lite
|
public |
antiSMASH - the antibiotics and Secondary Metabolite Analysis SHell
|
2025-03-25 |
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perl-set-object
|
public |
Unordered collections (sets) of Perl Objects
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2025-03-25 |
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mercat2
|
public |
versatile k-mer counter and diversity estimator for database independent property analysis (DIPA) for multi-omic analysis
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2025-03-25 |
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secedo
|
public |
SNV-based clustering for single-cell sequencing data
|
2025-03-25 |
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hi-corrector
|
public |
Remove biases from chromatin contact matrices generated by genome-wide proximity ligation assays, e.g. Hi-C and its variant TCC
|
2025-03-25 |
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metaomestats
|
public |
Scripts for calculating statistics from FASTA sequences
|
2025-03-25 |
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r-consensustme
|
public |
ConsensusTME is a consensus based approach to generating cancer specific gene sets for multiple cell types found within the tumour microenvironment. This package allows access to these genesets and provides a wrapper for using these gene sets with various statistical frameworks to generate normalised enrichment scores. These can be used to identify relative quantities of cell types across multiple samples.
|
2025-03-25 |
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btyper3
|
public |
In silico taxonomic classification of Bacillus cereus group isolates using assembled genomes
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2025-03-25 |
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r-mmcpcounter
|
public |
Murine version of MCP-counter, a tool to estimate the immune and stromal composition of heterogeneous tissue, from transcriptomic data
|
2025-03-25 |
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ebcsgen
|
public |
eBSCgen is a tool for development and analysis of models written in Biochemical Space Language (BCSL).
|
2025-03-25 |
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simscsntree
|
public |
Simulating single cell sequencing data
|
2025-03-25 |
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tidk
|
public |
Identify and find telomeres, or telomeric repeats in a genome.
|
2025-03-25 |
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splitp
|
public |
splitp is a streaming read pre-preprocessor.
|
2025-03-25 |
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ngscheckmate
|
public |
Software package for identifying next generation sequencing (NGS) data files from the same individual.
|
2025-03-25 |
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perl-pod-eventual
|
public |
read a POD document as a series of trivial events
|
2025-03-25 |
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perl-test2-plugin-nowarnings
|
public |
Fail if tests warn
|
2025-03-25 |
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quatradis
|
public |
A set of tools to analyse the output from TraDIS analyses
|
2025-03-25 |
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mudskipper
|
public |
mudskipper is a tool for converting genomic BAM/SAM files to transcriptomic BAM/RAD files.
|
2025-03-25 |
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autometa
|
public |
Automated extraction of genomes from shotgun metagenomes
|
2025-03-25 |
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dnarrange
|
public |
Find rearrangements in "long" DNA reads relative to a genome sequence
|
2025-03-25 |
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trimap
|
public |
TriMap: Large-scale Dimensionality Reduction Using Triplets
|
2025-03-25 |
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foldseek
|
public |
Foldseek: fast and accurate protein structure search
|
2025-03-25 |
|
crabs
|
public |
Crabs (Creating Reference databases for Amplicon-Based Sequencing) is a program to download and curate reference databases for eDNA metabarcoding analyses.
|
2025-03-25 |
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peregrine-2021
|
public |
A genome assembler designed for long-reads that have good enough accuracy
|
2025-03-25 |
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pmga
|
public |
Command-line version of PMGA (PubMLST Genome Annotator) for all Neisseria species and Haemophilus influenzae
|
2025-03-25 |
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merfin
|
public |
Improved variant filtering and polishing via k-mer validation.
|
2025-03-25 |
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perl-bio-procedural
|
public |
Simple low-dependency procedural interfaces to BioPerl
|
2025-03-25 |
