Alternatives and similar repositories for fast-sg

Users that are interested in fast-sg are comparing it to the libraries listed below

• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆39Updated 5 years ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 2 years ago
• VGP / vgp-tools
  ☆28Updated 3 months ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆35Updated 2 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆30Updated 3 months ago
• kuleshov / architect
  Scaffolding genomes using synthetic long read clouds
  ☆20Updated 8 years ago
• lh3 / unicall
  A wrapper for calling small variants from human germline high-coverage single-sample Illumina data
  ☆14Updated 5 years ago
• karel-brinda / samsift
  SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.
  ☆23Updated 7 years ago
• uio-bmi / NucMerge
  Genome assembly quality improvement assisted by alternative assemblies and paired-end Illumina reads
  ☆7Updated 6 years ago
• cvdelannoy / poreTally
  Benchmark MinION assembler pipelines and publish your results in a heartbeat!
  ☆15Updated 5 years ago
• COMBINE-lab / RapClust
  Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes
  ☆31Updated last year
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆22Updated 4 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 6 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆42Updated 9 months ago
• kehrlab / PopIns2
  Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs
  ☆24Updated last year
• TGatter / LazyB
  Economic Genome Assembly from Low Coverage Illumina and Nanopore Data
  ☆20Updated 3 years ago
• SchulzLab / ORNA
  Fast in-silico normalization algorithm for NGS data
  ☆23Updated 3 years ago
• photocyte / plot_mitochondrial_genome_with_CIRCOS
  ☆15Updated 7 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 2 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆26Updated 4 years ago
• xa6xa6 / metaOthello
  ☆16Updated 7 years ago
• jts / mbtools
  ☆14Updated last year
• bahlolab / superSTR
  A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
  ☆18Updated last month
• wen-biao / OM-HiC-scaffolding
  Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data
  ☆20Updated 4 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
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 3 months ago
• BrendelGroup / AEGeAn
  Integrated toolkit for analysis and evaluation of annotated genomes
  ☆25Updated last year
• paudano / kestrel
  Mapping-free variant caller for short-read Illumina data
  ☆19Updated 5 years ago
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆17Updated 6 years ago
• mikolmogorov / pbclip
  A simple tool to fix PacBio fasta/q that was not properly split into subreads
  ☆15Updated 4 years ago