Alternatives and similar repositories for sonLib

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

• VGP / vgp-tools
  ☆28Updated last month
• ekg / edyeet
  base-accurate DNA sequence alignments using edlib and mashmap2
  ☆33Updated 4 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 3 years ago
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆42Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆25Updated last year
• rvaser / rala
  Layout module for raw de novo genome assembly of long uncorrected reads.
  ☆21Updated 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
• edawson / gfakluge
  A C++ library and utilities for manipulating the Graphical Fragment Assembly format.
  ☆54Updated 3 years ago
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆49Updated 5 years ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• bcgsc / ntLink
  Minimizer-based assembly scaffolding and mapping using long reads
  ☆40Updated 7 months ago
• alshai / levioSAM
  Lift-over alignments from variant-aware references
  ☆34Updated 2 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• atifrahman / HAWK
  Hitting associations with k-mers
  ☆45Updated 3 years ago
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆30Updated 2 years ago
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 7 years ago
• sequencing / NxTrim
  Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.
  ☆54Updated 7 years ago
• EvolBioInf / fur
  Find Unique genomic Regions
  ☆29Updated 2 months ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆58Updated 10 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…
  ☆66Updated 2 years ago
• kehrlab / PopDel
  Population-wide Deletion Calling
  ☆35Updated last month
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 4 years ago
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated 2 months ago
• mrvollger / SDA
  Segmental Duplication Assembler (SDA).
  ☆44Updated 2 years ago
• PacificBiosciences / bam2fastx
  Converting and demultiplexing of PacBio BAM files into gzipped fasta and fastq files.
  ☆37Updated 2 years ago
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 6 years ago
• pangenome / smoothxg
  linearize and simplify variation graphs using blocked partial order alignment
  ☆57Updated last month
• bcgsc / RAILS
  🚝RAILS and 👞🔨Cobbler: Assembly Improvement by Long Sequence Scaffolding/Gap-filling
  ☆27Updated last year