Alternative splicing resource
📈 DNA Sequence Visualization for Humans
A powerful toolset for genome arithmetic.
fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
Explore and analyze biological sequence data
Useful bash one-liners for bioinformatics.
ChIP-seq analysis notes from Ming Tang
RNAseq analysis notes from Ming Tang
🔬 Path to a free self-taught education in Bioinformatics!
Informatics for RNA-seq: A web resource for analysis on the cloud. Educational tutorials and working pipelines...
Pathogen-Host Analysis Tool - A modern Next-Generation Sequencing (NGS) analysis platform
Interactive in-browser track viewer
HTML5 canvas genomic graphics library
Horizon chart js library for DNA data.
Flexible circular visualization of genome-associated data with BioPerl and SVG.
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of...
Efficient pythonic random access to fasta subsequences
cython + htslib == fast VCF and BCF processing
Python wrapper -- and more -- for Aaron Quinlan's BEDTools (bioinformatics tools)
A Variant Call Format reader for Python.
A fast Python library for VCF files leveraging Cython for speed.
Access to Biological Web Services from Python.
Python interface to access reference genome features (such as genes, transcripts, and exons) from Ensembl
python access to UCSC genomes database
tools for adding mutations to existing .bam files, used for testing mutation callers
GFF and GTF file manipulation and interconversion
A set of tools written in Perl and C++ for working with VCF files, such as...
a simple C++ library for parsing and manipulating VCF files, + many command-line utilities
annotate a VCF with other VCFs/BEDs/tabixed files
This is the official development repository for BCFtools. To compile, the develop branch of htslib is...
A software for calculating telomere length
SAMStat displays various properties of next-generation sequencing reads stored in SAM/BAM format.
Automate common sam & bam conversions
A bam toolbox
Tools (written in C using htslib) for manipulating next-generation sequencing data
C++ API & command-line toolkit for working with BAM data
A fast and sensitive gapped read aligner
Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
Toolkit for processing sequences in FASTA/Q formats
Bayesian haplotype-based genetic polymorphism discovery and genotyping.
Simple FASTQ quality assessment using Python
A cross-platform and ultrafast toolkit for FASTA/Q file manipulation in Golang
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
Scientific workflow engine designed for simplicity & scalability. Trivially transition between one off use cases to...
Workflow Description Language - Specification and Implementations
Write-once-read-many table for large datasets.