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mztosqlite
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public |
Convert proteomics data files into a SQLite database.
|
2024-06-05 |
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squeakr
|
public |
An Exact and Approximate k-mer Counting System
|
2024-06-04 |
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dawg
|
public |
DNA Assembly with Gaps (Dawg) is an application designed to simulate the evolution of recombinant DNA sequences in continuous time based on the robust general time reversible model with gamma and invariant rate heterogeneity and a novel length-dependent model of gap formation.
|
2024-06-04 |
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cassiopee
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public |
scan an input genomic sequence (dna/rna/protein) and search for a subsequence with exact match or allowing substitutions (Hamming distance) and/or insertion/deletions
|
2024-06-04 |
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airr
|
public |
AIRR Community Data Representation Standard reference library for antibody and TCR sequencing data. Citations: AIRR standards <doi:10.5281/zenodo.1185414>.
|
2024-06-03 |
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vcf2maf
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public |
Convert a VCF into a MAF where each variant is annotated to only one of all possible gene isoforms.
|
2024-05-31 |
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perl-spreadsheet-parseexcel
|
public |
Read information from an Excel file.
|
2024-05-31 |
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bioconductor-contibait
|
public |
Improves Early Build Genome Assemblies using Strand-Seq Data
|
2024-05-30 |
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bioconductor-exomecopy
|
public |
Copy number variant detection from exome sequencing read depth
|
2024-05-28 |
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smallgenomeutilities
|
public |
A collection of scripts that are useful for dealing with viral RNA NGS data.
|
2024-05-27 |
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toil
|
public |
A scalable, efficient, cross-platform and easy-to-use workflow engine in pure Python
|
2024-05-24 |
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snpeff
|
public |
Genetic variant annotation and effect prediction toolbox
|
2024-05-23 |
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bioconductor-maigespack
|
public |
Functions to handle cDNA microarray data, including several methods of data analysis
|
2024-05-10 |
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yaggo
|
public |
Yaggo is a tool to generate command line parsers for C++. Yaggo stands for "Yet Another GenGetOpt" and is inspired by GNU Gengetopt.
|
2024-05-09 |
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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 |
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mockinbird
|
public |
A fully automatic and reproducible PAR-CLIP analysis pipeline
|
2024-05-07 |
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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 |
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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 |
