Alternatives and similar repositories for bcbb

Users that are interested in bcbb are comparing it to the libraries listed below

• jorvis / biocode
  Bioinformatics code libraries and scripts
  ☆546Updated 3 months ago
• tiagoantao / bioinf-python
  Python for Bioinformatics
  ☆261Updated 5 years ago
• bcbio / bcbio-nextgen
  Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
  ☆1,016Updated last year
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆741Updated 3 months ago
• jdidion / biotools
  A list of useful bioinformatics resources
  ☆616Updated 5 months ago
• lindenb / jvarkit
  Java utilities for Bioinformatics
  ☆511Updated last week
• Ensembl / ensembl-vep
  The Ensembl Variant Effect Predictor predicts the functional effects of genomic variants
  ☆508Updated last week
• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆1,004Updated 7 months ago
• freebayes / freebayes
  Bayesian haplotype-based genetic polymorphism discovery and genotyping.
  ☆845Updated 4 months ago
• mdshw5 / pyfaidx
  Efficient pythonic random access to fasta subsequences
  ☆479Updated last month
• tanghaibao / jcvi
  Python library to facilitate genome assembly, annotation, and comparative genomics
  ☆865Updated 2 months ago
• cole-trapnell-lab / cufflinks
  ☆319Updated 5 years ago
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆845Updated last year
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆514Updated last month
• gpertea / stringtie
  Transcript assembly and quantification for RNA-Seq
  ☆470Updated this week
• FelixKrueger / Bismark
  A tool to map bisulfite converted sequence reads and determine cytosine methylation states
  ☆434Updated 2 months ago
• pachterlab / kallisto
  Near-optimal RNA-Seq quantification
  ☆703Updated 6 months ago
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆803Updated 3 months ago
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆454Updated last year
• nf-core / sarek
  Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
  ☆492Updated this week
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆326Updated 7 months ago
• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,372Updated this week
• dellytools / delly
  DELLY2: Structural variant discovery by integrated paired-end and split-read analysis
  ☆488Updated 2 months ago
• peterjc / biopython_workshop
  A basic introduction to Biopython, intended for a classroom based workshop. Now on Codeberg.
  ☆224Updated 5 years ago
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆664Updated 4 months ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆555Updated last year
• CGATOxford / UMI-tools
  Tools for handling Unique Molecular Identifiers in NGS data sets
  ☆526Updated 3 months ago
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆527Updated last month
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆544Updated 3 weeks ago
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆875Updated 8 months ago