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jalview
|
public |
Jalview is a free program for multiple sequence alignment editing, visualisation, analysis and figure generation.
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2024-11-29 |
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hicexplorer
|
public |
Set of programs to process, analyze and visualize Hi-C and capture Hi-C data
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2024-11-28 |
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strelka
|
public |
Strelka calls somatic and germline small variants from mapped sequencing reads
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2024-11-28 |
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repeatmodeler
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public |
RepeatModeler is a de-novo repeat family identification and modeling package.
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2024-11-28 |
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arvados-python-client
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public |
Python API for Arvados
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2024-11-26 |
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damidseq_pipeline
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public |
An automated pipeline for processing DamID sequencing datasets.
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2024-11-25 |
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hmftools-purple
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public |
PURPLE is a purity ploidy estimator for tumor samples.
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2024-11-25 |
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hmftools-amber
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public |
Generates a tumor BAF file for use in PURPLE.
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2024-11-21 |
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hmftools-cobalt
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public |
Calculate read-depth counts and GC ratios to use in PURPLE.
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2024-11-21 |
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biobb_model
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public |
Biobb_model is the Biobb module collection to check and model 3d structures, create mutations or reconstruct missing atoms.
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2024-11-20 |
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cnvkit
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public |
Copy number variant detection from high-throughput sequencing.
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2024-11-18 |
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beagle
|
public |
Beagle is a software package for phasing genotypes and for imputing ungenotyped markers.
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2024-11-14 |
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teloclip
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public |
A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
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2024-11-13 |
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bioblend
|
public |
A Python library for interacting with the Galaxy API.
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2024-11-07 |
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cat
|
public |
CAT/BAT: tool for taxonomic classification of contigs and metagenome-assembled genomes (MAGs)
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2024-11-06 |
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perl-ole-storage_lite
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public |
Read and write OLE storage files.
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2024-11-05 |
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tinscan
|
public |
Find alignment signatures characteristic of transposon insertion sites.
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2024-11-05 |
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mimeo
|
public |
Scan genomes for internally repeated sequences, elements which are repetitive in another species, or high-identity HGT candidate regions between species.
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2024-11-04 |
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seqkit
|
public |
a cross-platform and ultrafast toolkit for FASTA/Q file manipulation
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2024-11-03 |
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taxonkit
|
public |
A Cross-platform and Efficient NCBI Taxonomy Toolkit
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2024-11-02 |
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csvtk
|
public |
A cross-platform, efficient, practical CSV/TSV toolkit
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2024-11-02 |
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fgbio
|
public |
A set of tools for working with genomic and high throughput sequencing data, including UMIs
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2024-11-02 |
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tirmite
|
public |
Map TIR-pHMM models to genomic sequences for annotation of MITES and complete DNA-Transposons.
|
2024-10-31 |
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gatk4
|
public |
Genome Analysis Toolkit (GATK4)
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2024-10-31 |
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pbsv
|
public |
pbsv - PacBio structural variant (SV) calling and analysis tools
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2024-10-29 |
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kaptive
|
public |
Reports information about surface polysaccharide loci for Klebsiella pneumoniae species complex and Acinetobacter baumannii genome assemblies.
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2024-10-28 |
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lima
|
public |
lima - The PacBio Barcode Demultiplexer
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2024-10-28 |
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masurca
|
public |
MaSuRCA (Maryland Super-Read Celera Assembler) genome assembly software. MaSuRCA requires Illumina data, and supports third-generation PacBio/Nanopore MinION reads for hybrid assembly.
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2024-10-28 |
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shortstack
|
public |
ShortStack: Comprehensive annotation and quantification of small RNA genes
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2024-10-28 |
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nanoqc
|
public |
Create fastQC-like plots for Oxford Nanopore sequencing data.
|
2024-10-28 |
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fastqe
|
public |
A emoji based bioinformatics command line tool.
|
2024-10-25 |
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augustus
|
public |
AUGUSTUS is a gene prediction program for eukaryotes written by Mario Stanke and Oliver Keller. It can be used as an ab initio program, which means it bases its prediction purely on the sequence. AUGUSTUS may also incorporate hints on the gene structure coming from extrinsic sources such as EST, MS/MS, protein alignments and synthenic genomic alignments.
|
2024-10-24 |
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snippy
|
public |
Rapid bacterial SNP calling and core genome alignments
|
2024-10-24 |
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trim-galore
|
public |
Trim Galore! is a wrapper script to automate quality and adapter trimming as well as quality control
|
2024-10-22 |
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perl-excel-writer-xlsx
|
public |
Create a new file in the Excel 2007+ XLSX format.
|
2024-10-22 |
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sevenbridges-python
|
public |
SBG API python client bindings
|
2024-10-19 |
|
pyteomics
|
public |
A framework for proteomics data analysis.
|
2024-10-18 |
|
rseqc
|
public |
QC package for RNA-seq data.
|
2024-10-16 |
|
solvebio
|
public |
The SolveBio Python client
|
2024-10-14 |
|
biobb_common
|
public |
Biobb_common is the base package required to use the biobb packages.
|
2024-10-11 |
|
pyfaidx
|
public |
pyfaidx: efficient pythonic random access to fasta subsequences
|
2024-10-10 |
|
nanosim
|
public |
NanoSim is a fast and scalable read simulator for Nanopore sequencing data.
|
2024-10-10 |
|
picard
|
public |
Java tools for working with NGS data in the BAM format
|
2024-10-10 |
|
pyliftover
|
public |
Pure-python implementation of UCSC ``liftOver`` genome coordinate conversion.
|
2024-10-07 |
|
galaxy_sequence_utils
|
public |
Sequence Utilities from the Galaxy project
|
2024-10-07 |
|
orthofinder
|
public |
Accurate inference of orthogroups, orthologues, gene trees and rooted species tree made easy!
|
2024-10-07 |
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pysradb
|
public |
Python package for retrieving metadata and downloading datasets from SRA/ENA/GEO
|
2024-10-03 |
|
python-hivclustering
|
public |
A Python 3 library that makes inferences on HIV-1 transmission networks.
|
2024-10-01 |
|
peptide-shaker
|
public |
Independent platform for interpretation of proteomics identification results.
|
2024-10-01 |
|
searchgui
|
public |
User-friendly graphical tool for using proteomics identification search engines.
|
2024-10-01 |
