Alternatives and similar repositories for fermi-lite

Users that are interested in fermi-lite are comparing it to the libraries listed below

• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆89Updated 5 years ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆73Updated 9 years ago
• lh3 / bgt
  Flexible genotype query among 30,000+ samples whole-genome
  ☆94Updated 6 years ago
• Cibiv / NextGenMap
  NextGenMap is a flexible highly sensitive short read mapping tool that handles much higher mismatch rates than comparable algorithms whil…
  ☆87Updated 6 years ago
• lh3 / fermikit
  De novo assembly based variant calling pipeline for Illumina short reads
  ☆108Updated 4 years ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 3 years ago
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 7 years ago
• aquaskyline / LRSIM
  10x Genomics Reads Simulator
  ☆45Updated last year
• mozack / abra
  Assembly Based ReAligner
  ☆74Updated 7 years ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆85Updated 7 years ago
• bcgsc / biobloom
  Create Bloom filters for a given reference and then use it to categorize sequences
  ☆76Updated 10 months ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆79Updated last year
• Cibiv / Teaser
  A tool to benchmark mappers and different parameters within minutes
  ☆44Updated 6 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆87Updated 7 years ago
• schatzlab / appliedgenomics2017
  JHU EN.600.649: Computational Genomics: Applied Comparative Genomics
  ☆58Updated 7 years ago
• ryanlayer / stix
  Structural Variant Index
  ☆75Updated 9 months ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• nanoporetech / wub
  Tools and software library developed by the ONT Applications group
  ☆63Updated 4 years ago
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• mattloose / RUscripts
  Scripts for implementing read until and other examples.
  ☆32Updated 5 years ago
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 4 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆64Updated 7 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆81Updated 8 months ago
• mgymrek / pybamview
  Browser based application for viewing bam alignments
  ☆56Updated 8 years ago
• cbg-ethz / shorah
  Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)
  ☆40Updated 2 years ago
• tseemann / VelvetOptimiser
  Automatically optimise three of Velvet's assembly parameters.
  ☆48Updated 2 years ago
• lh3 / CHM-eval
  ☆54Updated 5 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆107Updated 3 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year