Alternatives and similar repositories for pypeFLOW:

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

• brentp / indelope
  find large indels (in the blind spot between GATK/freebayes and SV callers)
  ☆39Updated 7 years ago
• benedictpaten / sonLib
  Small general purpose library for C and Python with focus on bioinformatics.
  ☆29Updated 2 years ago
• maragkakislab / samql
  SQL-like query language for the SAM/BAM file format
  ☆27Updated last year
• BoutrosLaboratory / bamql
  Query language for filtering SAM/BAM reads
  ☆31Updated 4 months ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆24Updated 9 months ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆65Updated 2 years ago
• arq5x / piledriver
  Basic, no assumptions, multi-pileup
  ☆24Updated 10 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆34Updated last year
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 2 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• SciLifeLab / NGI-MethylSeq
  This pipeline has moved! Please see:
  ☆11Updated 6 years ago
• incertae-sedis / smof
  Explore and analyze biological sequence data
  ☆16Updated 6 months ago
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• HudsonAlpha / fmlrc2
  ☆45Updated last year
• VGP / vgp-tools
  ☆28Updated last year
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• shilpagarg / WHdenovo
  ☆47Updated 4 years ago
• arshajii / ema
  Fast & accurate alignment of barcoded short-reads
  ☆33Updated last year
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 6 years ago
• indraniel / fqgrep
  An approximate sequence pattern matcher for FASTQ/FASTA files.
  ☆30Updated 9 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated last week
• AndreaGuarracino / paf2chain
  convert PAF format to CHAIN format
  ☆27Updated 2 months ago
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago
• shiquan / bcfanno
  A fast and flexible program to annotate/interpret genetic variants in VCF/BCF file
  ☆17Updated 4 years ago
• bioinformatics-centre / BayesTyper
  A method for variant graph genotyping based on exact alignment of k-mers
  ☆87Updated 5 years ago
• brentp / pbr
  drunk on perbase pileups and lua expressions
  ☆17Updated last year
• GregoryFaust / yaha
  yaha: a flexible, sensitive and accurate DNA alignment tool designed to find optimal split-read mappings on single-end queries from 100bp…
  ☆21Updated 7 years ago
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 2 years ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆55Updated 7 years ago