Alternatives and similar repositories for chopper:

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

• jtlovell / GENESPACE
  ☆198Updated 3 weeks ago
• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆195Updated last year
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆169Updated 2 weeks ago
• huangnengCSU / compleasm
  A genome completeness evaluation tool based on miniprot
  ☆190Updated 4 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated last month
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆155Updated last week
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆143Updated 2 years ago
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆174Updated 3 weeks ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆134Updated 3 years ago
• hewm2008 / NGenomeSyn
  Any Way to Show Multi genomic Synteny
  ☆173Updated 3 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆295Updated 2 months ago
• ruanjue / smartdenovo
  Ultra-fast de novo assembler using long noisy reads
  ☆131Updated 3 years ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆156Updated last year
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆101Updated this week
• lh3 / pangene
  Constructing a pangenome gene graph
  ☆179Updated 7 months ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆122Updated 2 months ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆74Updated this week
• hahnlab / CAFE5
  Version 5 of the CAFE phylogenetics software
  ☆121Updated this week
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆81Updated 2 years ago
• epi2me-labs / wf-transcriptomes
  ☆84Updated last month
• mahulchak / quickmerge
  A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.
  ☆202Updated 2 years ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 3 years ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆119Updated 6 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 3 years ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆202Updated last month
• wdecoster / cramino
  A *fast* tool for BAM/CRAM quality evaluation, intended for long reads
  ☆135Updated 3 weeks ago
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆220Updated last year
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆198Updated 2 years ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆140Updated last year
• cgroza / GraffiTE
  GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …
  ☆155Updated last week