bcbio / bcbio-nextgenLinks
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
☆1,008Updated 10 months ago
Alternatives and similar repositories for bcbio-nextgen
Users that are interested in bcbio-nextgen are comparing it to the libraries listed below
Sorting:
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,327Updated last week
- bedtools - the swiss army knife for genome arithmetic☆985Updated 4 months ago
- Incubator for useful bioinformatics code, primarily in Python and R☆625Updated 5 months ago
- Trinity RNA-Seq de novo transcriptome assembly☆865Updated 5 months ago
- Tools to process and analyze deep sequencing data.☆723Updated last week
- Pysam is a Python package for reading, manipulating, and writing genomics data such as SAM/BAM/CRAM and VCF/BCF files. It's a lightweight…☆836Updated last month
- Bayesian haplotype-based genetic polymorphism discovery and genotyping.☆834Updated last month
- MACS -- Model-based Analysis of ChIP-Seq☆748Updated 3 months ago
- Specifications of SAM/BAM and related high-throughput sequencing file formats☆682Updated this week
- Toolkit for processing sequences in FASTA/Q formats☆1,476Updated last month
- Near-optimal RNA-Seq quantification☆693Updated 3 months ago
- A curated list of nextflow based pipelines☆598Updated 3 weeks ago
- python module to plot beautiful and highly customizable genome browser tracks☆826Updated last year
- Bioinformatics containers☆731Updated 2 months ago
- The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants☆495Updated this week
- 🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment☆813Updated last year
- Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations☆686Updated this week
- A fast and sensitive gapped read aligner☆724Updated 7 months ago
- Haplotype VCF comparison tools☆437Updated last year
- Graph-based alignment (Hierarchical Graph FM index)☆503Updated 8 months ago
- A tool to map bisulfite converted sequence reads and determine cytosine methylation states☆425Updated 2 months ago
- Tools for handling Unique Molecular Identifiers in NGS data sets☆515Updated last week
- RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.☆1,063Updated last week
- ChIP-seq analysis notes from Ming Tang☆809Updated 11 months ago
- Java utilities for Bioinformatics☆504Updated last month
- BWK awk modified for biological data☆624Updated 2 years ago
- The next version of bwa-mem☆766Updated 2 weeks ago
- A set of command line tools (in Java) for manipulating high-throughput sequencing (HTS) data and formats such as SAM/BAM/CRAM and VCF.☆1,020Updated last week
- RNAseq analysis notes from Ming Tang☆1,016Updated 3 years ago
- A list of useful bioinformatics resources☆606Updated 2 months ago