Alternatives and similar repositories for bam-filter

Users that are interested in bam-filter are comparing it to the libraries listed below

• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• rhysf / Synima
  Synteny Imager
  ☆65Updated 3 weeks ago
• metagenlab / mummer2circos
  Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments
  ☆107Updated last year
• lh3 / minipileup
  Simple pileup-based variant caller
  ☆93Updated 6 months ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆75Updated 4 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• thlee / SNPhylo
  A pipeline to generate a phylogenetic tree from huge SNP data
  ☆92Updated last year
• PacificBiosciences / pbtk
  PacBio BAM toolkit
  ☆46Updated 8 months ago
• sujaikumar / assemblage
  Tools for working with second gen assemblies, fasta sequences, etc
  ☆93Updated 9 years ago
• JimWhiting91 / genotype_plot
  A set of functions to visualise genotypes based on a VCF
  ☆87Updated 3 years ago
• steuernb / NLR-Annotator
  NLR-Annotator upload
  ☆73Updated 2 years ago
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆80Updated 9 months ago
• colindaven / awesome-pangenomes
  A list of software for pangenomics
  ☆142Updated 2 weeks ago
• genotoul-bioinfo / dgenies
  Dotplot large Genomes in an Interactive, Efficient and Simple way
  ☆108Updated 2 weeks ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆120Updated last month
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆118Updated 2 years ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆100Updated 6 years ago
• ArimaGenomics / mapping_pipeline
  Mapping pipeline for data generated using Arima-HiC
  ☆81Updated last year
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆54Updated last year
• JustinChu / JupiterPlot
  A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.
  ☆86Updated last year
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆99Updated 6 months ago
• codialab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆115Updated last week
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆78Updated 2 months ago
• dentearl / mafTools
  Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.
  ☆109Updated 3 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆59Updated 2 years ago
• nclark-lab / RERconverge
  Analysis of convergence between organismal traits and DNA/protein sequences
  ☆59Updated 2 weeks ago
• SAMtoBAM / MUMandCo
  MUM&Co is a simple bash script that uses Whole Genome Alignment information provided by MUMmer (only v4) to detect Structural Variation
  ☆75Updated 2 months ago
• Kuanhao-Chao / LiftOn
  🚀 LiftOn: Accurate annotation mapping for GFF/GTF across assemblies
  ☆115Updated this week
• wurmlab / flo
  Same species annotation lift over pipeline.
  ☆98Updated 2 years ago
• mahulchak / svmu
  A program to call variants from genome alignment
  ☆81Updated 6 months ago