Alternatives and similar repositories for pycoQC:

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

• wdecoster / nanopack
  An overview of all nanopack tools
  ☆233Updated last year
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆198Updated 2 years ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆317Updated last year
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆314Updated 8 months ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆157Updated last year
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆202Updated 3 months ago
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆347Updated 2 years ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆242Updated 3 months ago
• marbl / merqury
  k-mer based assembly evaluation
  ☆302Updated 7 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated last month
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆207Updated last year
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆181Updated 2 months ago
• PASApipeline / PASApipeline
  PASA software
  ☆183Updated last week
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆236Updated 10 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆141Updated last year
• marbl / Winnowmap
  Long read / genome alignment software
  ☆274Updated 3 months ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆261Updated 2 weeks ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆135Updated 3 years ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆200Updated last month
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆258Updated last month
• roblanf / minion_qc
  Quality control for MinION sequencing data
  ☆215Updated 2 years ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 3 years ago
• nf-core / nanoseq
  Nanopore demultiplexing, QC and alignment pipeline
  ☆192Updated 3 weeks ago
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆258Updated this week
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆107Updated 2 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆237Updated last month
• brentp / smoove
  structural variant calling and genotyping with existing tools, but, smoothly.
  ☆245Updated 8 months ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆197Updated 6 months ago
• oushujun / LTR_retriever
  LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…
  ☆196Updated this week
• tjiangHIT / cuteSV
  Long read based human genomic structural variation detection with cuteSV
  ☆254Updated last month