Alternatives and similar repositories for piscem-infer

Users that are interested in piscem-infer are comparing it to the libraries listed below

• COMBINE-lab / piscem
  Rust wrapper for the next generation (still currently in C++)
  ☆28Updated last month
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 10 months ago
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated 11 months ago
• pierrepeterlongo / kmer2sequences
  Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.
  ☆21Updated last year
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆26Updated 2 years ago
• Singular-Genomics / singular-demux
  Singular Genomics Demultiplexing Tool
  ☆16Updated last year
• jts / mbtools
  ☆14Updated last year
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆31Updated 10 months ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆33Updated 3 years ago
• jessicabonnie / dandd
  Tool to estimate deltas for sequence sets and answer questions about relative contribution
  ☆21Updated 5 months ago
• 38 / pyd4
  The python binding for D4 format
  ☆16Updated 3 years ago
• ArcInstitute / mmr
  A minimap2 implementation with binseq inputs
  ☆16Updated last month
• DecodeGenetics / LRcaller
  ☆16Updated 3 years ago
• fulcrumgenomics / pybwa
  Python language bindings for bwa
  ☆10Updated last month
• nh13 / fqme
  ☆22Updated 8 months ago
• langmead-lab / vargas
  ☆25Updated last week
• imartayan / CBL
  A Rust library providing fully dynamic sets of k-mers with high locality
  ☆45Updated 11 months ago
• ban-m / jtk
  JTK -- a regional diploid genome assembler
  ☆25Updated 10 months ago
• bahlolab / superSTR
  A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.
  ☆18Updated last month
• brentp / pbr
  drunk on perbase pileups and lua expressions
  ☆19Updated 3 months ago
• at-cg / minichain
  Long-read aligner to pangenome graphs
  ☆26Updated last year
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• Daniel-Liu-c0deb0t / dlb-kmer-sampling
  Optimal distance lower bound k-mer sampling.
  ☆12Updated last year
• jltsiren / gbwtgraph
  GBWT-based handle graph
  ☆31Updated 2 months ago
• tobiasrausch / lorax
  A long-read analysis toolbox for cancer and population genomics
  ☆23Updated 2 months ago
• cdarby / genomicsjc
  Johns Hopkins University student-led genomics paper discussion group
  ☆13Updated 5 years ago
• Gaius-Augustus / clamsa
  ClaMSA (Classify Multiple Sequence Alignments).
  ☆13Updated 9 months ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 5 months ago
• Magdoll / CoSA
  Coronavirus (SARS-Cov-2) sequencing analysis
  ☆10Updated 3 years ago
• RagnarGrootKoerkamp / minimizers
  Reference implementations of minimizer schemes to go with the mod-minimizers paper.
  ☆25Updated 4 months ago