Alternatives and similar repositories for bam2msa

Users that are interested in bam2msa are comparing it to the libraries listed below

• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• brianli314 / palindrome-finder
  A bioinformatics tool written in Rust to find palindromic sequences in DNA
  ☆38Updated 4 months ago
• atifrahman / SWALO
  Scaffolding with assembly likelihood optimization
  ☆21Updated 5 years ago
• WHops / NAHRwhals
  R package and wrapper functions for identifying serial structural variations from genome assemblies
  ☆28Updated last year
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆36Updated last month
• mahulchak / mscaffolder
  A comparative genome scaffolding tool
  ☆16Updated 7 years ago
• uio-bmi / NucBreak
  Location of structural errors in a genome assembly and structural variations between a pair of genomes
  ☆11Updated 6 years ago
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆33Updated 5 years ago
• DRL / kinfin
  Taxon-aware analysis of clustered protein sequences
  ☆31Updated last year
• s-andrews / redotable
  A dotplot application for DNA/RNA sequence
  ☆11Updated 3 years ago
• jmonlong / sveval
  Functions to compare a SV call sets against a truth set.
  ☆30Updated 6 months ago
• ekg / fastix
  Prefix-renaming FASTA records really fast.
  ☆17Updated last year
• mikolmogorov / maf2synteny
  A tool for recovering synteny blocks from multiple alignment
  ☆32Updated 4 years ago
• pierrepeterlongo / back_to_sequences
  ☆45Updated last month
• fritzsedlazeck / sge_mummer
  Scripts to split reference and run mummer in parallel on an SGE cluster
  ☆11Updated 9 years ago
• SR-Martin / alvis
  ☆20Updated 2 years ago
• ldenti / palss
  ☆23Updated 4 months ago
• wjidea / defusion
  defusion
  ☆14Updated 4 years ago
• gf777 / mitoVGP
  The Vertebrate Genomes Project Mitogenome Assembly Pipeline
  ☆19Updated 2 years ago
• magspho / hifieval
  a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).
  ☆21Updated 2 years ago
• maojanlin / biastools
  Reference bias measuring toolkit
  ☆19Updated 8 months ago
• LankyCyril / edgecase
  A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, a…
  ☆16Updated last year
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆20Updated last year
• USDA-ARS-GBRU / PanPipes
  Test sets and pipeline scripts for pan-genomic graph analysis
  ☆17Updated 11 months ago
• mpdunne / orthofiller
  OrthoFiller: Identifying missing annotations for evolutionarily conserved genes.
  ☆23Updated 3 years ago
• DessimozLab / OMAnnotator
  Consensus genome annotation using OMA
  ☆31Updated 6 months ago
• mobinasri / secphase
  Phasing reads with secondary alignments
  ☆21Updated last year
• alevar / tiebrush
  Summarize and filter read alignments from multiple sequencing samples (taken as sorted BAM files)
  ☆17Updated 2 months ago
• ERGA-consortium / pipelines
  ☆17Updated 6 months ago
• Eco-Flow / synteny
  A Nextflow pipeline for running synteny analysis.
  ☆16Updated 6 months ago