Alternatives and similar repositories for bioruby-pipengine:

Users that are interested in bioruby-pipengine are comparing it to the libraries listed below

• SciLifeLab / NGI-MethylSeq
  This pipeline has moved! Please see:
  ☆11Updated 7 years ago
• indraniel / fqgrep
  An approximate sequence pattern matcher for FASTQ/FASTA files.
  ☆30Updated 9 years ago
• rjpbonnal / bioruby-samtools
  Porting of samtools-ruby to BioRuby. Binder of samtools for ruby, on the top of FFI -from original project-
  ☆33Updated 5 years ago
• incertae-sedis / smof
  Explore and analyze biological sequence data
  ☆16Updated 8 months ago
• poreathon / poreathon
  Pipeline for poreathon
  ☆14Updated 10 years ago
• TGAC / NanoOK
  Analysis tool for Nanopore sequencing data
  ☆33Updated 5 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 6 years ago
• scottgigante / picopore
  A tool to reduce the size of Oxford Nanopore Technologies' datasets without losing information
  ☆31Updated last year
• csiro-crop-informatics / biokanga
  An integrated high performance bioinformatics toolkit
  ☆23Updated 5 years ago
• ucdavis-bioinformatics / sickle
  Windowed Adaptive Trimming for fastq files using quality
  ☆25Updated 10 years ago
• enasequence / cramtools
  CRAM format specification and java API for read data.
  ☆59Updated 6 years ago
• robsyme / nextflow-annotate
  Workflows I find helpful for fungal genome annotation
  ☆21Updated last year
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 2 years ago
• lh3 / fermi2
  ☆26Updated 3 years ago
• Cibiv / Teaser
  A tool to benchmark mappers and different parameters within minutes
  ☆44Updated 5 years ago
• kdm9 / axe
  Rapid competitive read demulitplexer. Made with tries.
  ☆23Updated last year
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• brentp / bigly
  a pileup library that embraces the huge
  ☆42Updated 4 years ago
• Kingsford-Group / bloomtree
  ☆73Updated 6 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• lh3 / fermi-lite
  Standalone C library for assembling Illumina short reads in small regions
  ☆72Updated 2 years ago
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆52Updated 4 years ago
• aquaskyline / LRSIM
  10x Genomics Reads Simulator
  ☆45Updated last year
• Abdo-Lab / Tychus
  ☆9Updated 7 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆62Updated 7 years ago
• dillonl / graphite
  Graphite - Graph-based variant adjudication
  ☆28Updated 4 years ago
• mgymrek / pybamview
  Browser based application for viewing bam alignments
  ☆56Updated 8 years ago
• vcflib / bio-vcf
  Smart VCF parser DSL
  ☆82Updated 2 years ago
• mattloose / RUscripts
  Scripts for implementing read until and other examples.
  ☆31Updated 5 years ago
• bow / crimson
  Bioinformatics tool outputs converter to JSON or YAML
  ☆36Updated 4 months ago