Alternatives and similar repositories for biofast

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

• OpenGene / SeqMaker.jl
  (No maintenance) Next Generation Sequencing Simulation with SNP, Variation and Sequencing Error Integrated
  ☆24Updated 8 years ago
• samuell / gccontent-benchmark
  Benchmarking different languages for a simple bioinformatics task (Counting the GC fraction of DNA in a FASTA file)
  ☆57Updated 2 years ago
• 38 / d4-format
  The D4 Quantitative Data Format
  ☆167Updated 5 months ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆109Updated last year
• brentp / slivar
  genetic variant expressions, annotation, and filtering for great good.
  ☆265Updated last month
• brentp / hts-nim
  nim wrapper for htslib for parsing genomics data files
  ☆156Updated last year
• lh3 / readfq
  Fast multi-line FASTA/Q reader in several programming languages
  ☆176Updated 4 years ago
• smarco / WFA-paper
  Wavefront alignment algorithm (WFA): Fast and exact gap-affine pairwise alignment
  ☆199Updated 3 years ago
• lh3 / cgranges
  A C/C++ library for fast interval overlap queries (with a "bedtools coverage" example)
  ☆168Updated last year
• stjude-rust-labs / fq
  Command line utility for manipulating Illumina-generated FASTQ files.
  ☆91Updated this week
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆129Updated 2 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• telatin / seqfu2
  seqfu - Sequece Fastx Utilities
  ☆120Updated this week
• sstadick / perbase
  Per-base per-nucleotide depth analysis
  ☆142Updated 2 weeks ago
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 7 months ago
• google / best
  Bam Error Stats Tool (best): analysis of error types in aligned reads.
  ☆137Updated 7 months ago
• pmelsted / bifrost
  Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
  ☆219Updated 2 weeks ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated 8 months ago
• fulcrumgenomics / fqgrep
  Grep for FASTQ files
  ☆98Updated 6 months ago
• slowkow / pytabix
  Retrieve data in genomic intervals with a Python interface for tabix.
  ☆82Updated 8 years ago
• 10XGenomics / rust-bwa
  Rust wrapper of the BWA C API
  ☆18Updated 4 months ago
• 10XGenomics / rust-pseudoaligner
  Single-Cell RNA-seq pseudo-aligner
  ☆51Updated last year
• brentp / hts-nim-tools
  useful command-line tools written to showcase hts-nim
  ☆50Updated 4 years ago
• compbiocore / VariantVisualization.jl
  Julia package powering VIVA, our tool for visualization of genomic variation data. Manual:
  ☆86Updated 2 years ago
• ksahlin / strobemers
  A repository for generating strobemers and evalaution
  ☆78Updated last year
• KirillKryukov / naf
  Nucleotide Archival Format - Compressed file format for DNA/RNA/protein sequences
  ☆62Updated 2 months ago
• ChaissonLab / LRA
  Long read aligner
  ☆115Updated 2 years ago
• dnbaker / dashing
  Fast and accurate genomic distances using HyperLogLog
  ☆162Updated 2 years ago
• lskatz / fasten
  Fasten toolkit, for streaming operations on fastq files
  ☆79Updated 6 months ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆172Updated last year