Alternatives and similar repositories for modkit:

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

• wdecoster / chopper
  ☆177Updated 2 weeks ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆135Updated 3 years ago
• jtlovell / GENESPACE
  ☆198Updated last month
• epi2me-labs / wf-human-variation
  ☆112Updated last week
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆196Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆298Updated 2 weeks ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated last month
• epi2me-labs / wf-transcriptomes
  ☆88Updated 2 months ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆262Updated this week
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆195Updated last month
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆174Updated 4 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆141Updated last year
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 3 years ago
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆157Updated 3 weeks ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆157Updated last year
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆261Updated 3 weeks ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆201Updated 2 years ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆183Updated 9 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆107Updated 2 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆204Updated this week
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆105Updated 2 weeks ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆131Updated 4 years ago
• nanoporetech / remora
  Methylation/modified base calling separated from basecalling.
  ☆165Updated 5 months ago
• ncbi / egapx
  Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
  ☆115Updated last month
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆364Updated last week
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆190Updated 5 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆133Updated this week
• wdecoster / cramino
  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
  ☆138Updated last month
• HuiyangYu / PanDepth
  An ultra-fast and efficient genomic tool for coverage calculation
  ☆141Updated 6 months ago