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bioconductor-cohcap
|
public |
CpG Island Analysis Pipeline for Illumina Methylation Array and Targeted BS-Seq Data
|
2024-05-09 |
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r-workflowscriptscommon
|
public |
Common functions for making R function wapper scripts. Functions in R packages are hard to call when building workflows outside of R, so this package is used by other packages (e.g. r-seurat-scripts) to add sets of simple wrappers with robust argument parsing.
|
2024-05-07 |
|
mockinbird
|
public |
A fully automatic and reproducible PAR-CLIP analysis pipeline
|
2024-05-07 |
|
pygenometracks
|
public |
Standalone program and library to plot beautiful genome browser tracks.
|
2024-05-07 |
|
seqlogo
|
public |
Python port of the R Bioconductor `seqlogo` package
|
2024-05-03 |
|
ddocent
|
public |
dDocent is an interactive bash wrapper to QC, assemble, map, and call SNPs from all types of RAD data
|
2024-05-03 |
|
recon
|
public |
No Summary
|
2024-05-01 |
|
hicmatrix
|
public |
Library to manage Hi-C matrices for HiCExplorer and pyGenomeTracks
|
2024-04-30 |
|
pyensembl
|
public |
Python interface to ensembl reference genome metadata
|
2024-04-25 |
|
gemini
|
public |
a lightweight db framework for disease and population genetics.
|
2024-04-25 |
|
shiver
|
public |
SHIVER - Sequences from HIV Easily Reconstructed
|
2024-04-24 |
|
cdbtools
|
public |
CDB (Constant DataBase) indexing and retrieval tools for FASTA files
|
2024-04-24 |
|
goleft
|
public |
goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
|
2024-04-22 |
|
exonerate
|
public |
Exonerate - A generic tool for pairwise sequence comparison / alignment
|
2024-04-21 |
|
trackhub
|
public |
Create and manage UCSC track hubs from Python
|
2024-04-21 |
|
rust-bio-tools
|
public |
A growing collection of fast and secure command line utilities for dealing with NGS data
implemented on top of Rust-Bio.
|
2024-04-19 |
|
vcfanno
|
public |
annotate a VCF with other VCFs/BEDs/tabixed files
|
2024-04-19 |
|
xxmotif
|
public |
No Summary
|
2024-04-14 |
|
gffutils
|
public |
Work with GFF and GTF files in a flexible database framework
|
2024-04-13 |
|
perl-parallel-loops
|
public |
Execute loops using parallel forked subprocesses
|
2024-04-13 |
|
ddrage
|
public |
Simulator for ddRADseq (double digest restriction site associated DNA sequencing) datasets. Generates reads (FASTQ format) that can be analyzed and validated using a ground truth file (YAML).
|
2024-04-05 |
|
pyega3
|
public |
EGA python client
|
2024-04-03 |
|
gatk
|
public |
The full Genome Analysis Toolkit (GATK) framework, v3
|
2024-04-03 |
|
cgatcore
|
public |
CGAT : the Computational Genomics Analysis Toolkit
|
2024-04-02 |
|
bcftools-gtc2vcf-plugin
|
public |
Tools to convert Illumina and Affymetrix array intensity data files into VCF files.
|
2024-03-29 |
|
igvtools
|
public |
Command line tools for IGV
|
2024-03-28 |
|
msgf_plus
|
public |
MS-GF+ is a MS/MS database search tool
|
2024-03-28 |
|
r-bcbiornaseq
|
public |
R package for bcbio RNA-seq analysis.
|
2024-03-28 |
|
anvio-minimal
|
public |
An interactive analysis and visualization platform for omics data
|
2024-03-25 |
|
rgi
|
public |
This tool provides a preliminary annotation of your DNA sequence(s) based upon the data available in The Comprehensive Antibiotic Resistance Database (CARD). Hits to genes tagged with Antibiotic Resistance ontology terms will be highlighted. As CARD expands to include more pathogens, genomes, plasmids, and ontology terms this tool will grow increasingly powerful in providing first-pass detection of antibiotic resistance associated genes. See license at CARD website
|
2024-03-24 |
|
mugsy
|
public |
Mugsy is a multiple whole genome aligner.
|
2024-03-21 |
|
rnachipintegrator
|
public |
Analyse genes against peak data, and vice versa
|
2024-03-18 |
|
mafft
|
public |
Multiple alignment program for amino acid or nucleotide sequences based on fast Fourier transform
|
2024-03-14 |
|
rdp_classifier
|
public |
Naive Bayesian classifier that can rapidly and accurately provide taxonomic assignments from domain to genus
|
2024-03-09 |
|
drep
|
public |
De-replication of microbial genomes assembled from multiple samples
|
2024-03-01 |
|
ont-fast5-api
|
public |
Oxford Nanopore Technologies fast5 API software
|
2024-02-28 |
|
dudes
|
public |
DUDes: a top-down taxonomic profiler for metagenomics and metaproteomics
|
2024-02-22 |
|
scanpy-scripts
|
public |
Scripts for using scanpy from the command line
|
2024-02-21 |
|
antismash
|
public |
antiSMASH - the antibiotics and Secondary Metabolite Analysis SHell
|
2024-02-14 |
|
purge_haplotigs
|
public |
Pipeline to help with curating heterozygous diploid genome assemblies.
|
2024-02-09 |
|
novoplasty
|
public |
The organelle assembler and heteroplasmy caller
|
2024-02-05 |
|
ephemeris
|
public |
Ephemeris is an opinionated library and set of scripts for managing the bootstrapping of Galaxy project plugins - tools, index data, and workflows.
|
2024-02-01 |
|
megan
|
public |
A tool for studying the taxonomic content of a set of DNA reads
|
2024-02-01 |
|
perl-biox-seq
|
public |
a basic but fast biological sequence object and associated parsers
|
2024-01-25 |
|
presto
|
public |
A bioinformatics toolkit for processing high-throughput lymphocyte receptor sequencing data.
|
2024-01-24 |
|
gtfparse
|
public |
GTF Parsing
|
2024-01-17 |
|
crossmap
|
public |
CrossMap is a program for convenient conversion of genome coordinates and genomeannotation files between assemblies.
|
2024-01-12 |
|
query_phenomizer
|
public |
Tool for query and parsing the phenomizer tool
|
2024-01-10 |
|
vcf2db
|
public |
Create a gemini-compatible database from a VCF
|
2024-01-10 |
|
vcfpy
|
public |
Python 3 VCF library with good support for both reading and writing
|
2024-01-10 |
