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pyteomics
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public |
A framework for proteomics data analysis.
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2024-10-18 |
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rseqc
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public |
QC package for RNA-seq data.
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2024-10-16 |
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biobb_common
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public |
Biobb_common is the base package required to use the biobb packages.
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2024-10-11 |
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pyfaidx
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public |
pyfaidx: efficient pythonic random access to fasta subsequences
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2024-10-10 |
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nanosim
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public |
NanoSim is a fast and scalable read simulator for Nanopore sequencing data.
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2024-10-10 |
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picard
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public |
Java tools for working with NGS data in the BAM format
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2024-10-10 |
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pyliftover
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public |
Pure-python implementation of UCSC ``liftOver`` genome coordinate conversion.
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2024-10-07 |
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galaxy_sequence_utils
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public |
Sequence Utilities from the Galaxy project
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2024-10-07 |
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orthofinder
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public |
Accurate inference of orthogroups, orthologues, gene trees and rooted species tree made easy!
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2024-10-07 |
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pysradb
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public |
Python package for retrieving metadata and downloading datasets from SRA/ENA/GEO
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2024-10-03 |
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python-hivclustering
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public |
A Python 3 library that makes inferences on HIV-1 transmission networks.
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2024-10-01 |
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peptide-shaker
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public |
Independent platform for interpretation of proteomics identification results.
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2024-10-01 |
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searchgui
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public |
User-friendly graphical tool for using proteomics identification search engines.
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2024-10-01 |
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agfusion
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public |
Python package to annotate and visualize gene fusions.
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2024-09-30 |
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planemo
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public |
Command-line utilities to assist in building tools for the Galaxy project (http://galaxyproject.org/).
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2024-09-24 |
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checkm-genome
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public |
Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes.
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2024-09-23 |
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percolator
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public |
Semi-supervised learning for peptide identification from shotgun proteomics datasets.
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2024-09-20 |
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fastq-screen
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public |
FastQ Screen allows you to screen a library of sequences in FastQ format against a set of sequence databases so you can see if the composition of the library matches with what you expect.
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2024-09-20 |
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fiji
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public |
Fiji is an image processing package—a "batteries-included" distribution of ImageJ, bundling a lot of plugins which facilitate scientific image analysis.
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2024-09-19 |
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repeatmasker
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public |
RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
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2024-09-17 |
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genomepy
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public |
Install and use genomes & gene annotations the easy way!
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2024-09-17 |
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vcflib
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public |
Command-line tools for manipulating VCF files.
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2024-09-17 |
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mirtop
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public |
Small RNA-seq annotation.
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2024-09-17 |
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cnv_facets
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public |
Detect somatic copy number variants (CNV) in tumour-normal samples using next generation sequencing data
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2024-09-17 |
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pronto
|
public |
Python frontend to ontologies
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2024-09-15 |
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bioconvert
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public |
Convert between bioinformatics formats
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2024-09-13 |
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synapseclient
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public |
Python client for Synapse
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2024-09-10 |
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toulligqc
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public |
A post sequencing QC tool for Oxford Nanopore sequencers.
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2024-09-10 |
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freebayes
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public |
Bayesian haplotype-based polymorphism discovery and genotyping
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2024-09-10 |
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perl-mce-shared
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public |
MCE extension for sharing data supporting threads and processes
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2024-09-10 |
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graphmap
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public |
A highly sensitive and accurate mapper for long, error-prone reads
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2024-09-09 |
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scnic
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public |
SCNIC: Sparse Cooccurence Network Investigation for Compositional data
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2024-09-06 |
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clipandmerge
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public |
Clip&Merge is a tool to clip off adapters from sequencing reads and merge overlapping paired end reads together.
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2024-09-05 |
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dedup
|
public |
DeDup is a tool for read deduplication in paired-end read merging (e.g. for ancient DNA experiments).
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2024-09-05 |
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wisecondorx
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public |
WIthin-SamplE COpy Number aberration DetectOR, including sex chromosomes
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2024-08-29 |
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perl-parallel-forkmanager
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public |
A simple parallel processing fork manager
|
2024-08-26 |
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gxformat2
|
public |
Galaxy Workflow Format 2 Descriptions
|
2024-08-23 |
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bpipe
|
public |
Bpipe - a tool for running and managing bioinformatics pipelines
|
2024-08-23 |
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pyseer
|
public |
Sequence Element Enrichment Analysis (SEER), python implementation
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2024-08-22 |
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pipits
|
public |
PIPITS: An automated pipeline for analyses of fungal internal transcribed spacer (ITS) sequences from the Illumina sequencing platform
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2024-08-19 |
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treetime
|
public |
Maximum-Likelihood dating and ancestral inference for phylogenetic trees
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2024-08-11 |
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pyani
|
public |
pyani provides a package and script for calculation of genome-scale average nucleotide identity.
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2024-08-09 |
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nanoplot
|
public |
Plotting suite for long read sequencing data and alignments
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2024-08-09 |
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cgpbigwig
|
public |
BigWig manpulation tools using libBigWig and htslib
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2024-08-08 |
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sonicparanoid
|
public |
SonicParanoid: fast, accurate, and comprehensive orthology inference with machine learning and language models
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2024-08-07 |
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chewbbaca
|
public |
A complete suite for gene-by-gene schema creation and strain identification.
|
2024-08-06 |
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bam-readcount
|
public |
bam-readcount generates metrics at single nucleotide positions.
|
2024-08-05 |
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r-ichorcna
|
public |
Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
|
2024-08-01 |
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perl-json
|
public |
JSON (JavaScript Object Notation) encoder/decoder
|
2024-07-31 |
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morpheus
|
public |
mass spectrometry–based proteomics database search algorithm
|
2024-07-25 |
