Alternatives and similar repositories for ccs

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

• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆160Updated 2 years ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆160Updated 8 months ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆228Updated 10 months ago
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 4 years ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆173Updated last year
• ComparativeGenomicsToolkit / hal
  Hierarchical Alignment Format
  ☆172Updated last month
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆101Updated last year
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆187Updated last year
• Benson-Genomics-Lab / TRF
  Tandem Repeats Finder: a program to analyze DNA sequences
  ☆195Updated 2 years ago
• cgroza / GraffiTE
  GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …
  ☆206Updated 3 weeks ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆205Updated last month
• nanoporetech / rerio
  Research release basecalling models and configurations
  ☆115Updated 5 months ago
• PacificBiosciences / pb-assembly
  PacBio Assembly Tool Suite: Reads in ⇨ Assembly out
  ☆118Updated 5 years ago
• vibansal / HapCUT2
  software tools for haplotype assembly from sequence data
  ☆223Updated 8 months ago
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆234Updated 9 months ago
• nanoporetech / pychopper
  A tool to identify, orient, trim and rescue full length cDNA reads
  ☆83Updated 3 years ago
• MariaNattestad / Assemblytics
  Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…
  ☆146Updated 3 months ago
• informationsea / transanno
  accurate LiftOver tool for new genome assemblies
  ☆137Updated last year
• novoalab / EpiNano
  Detection of RNA modifications from Oxford Nanopore direct RNA sequencing reads (Liu*, Begik* et al., Nature Comm 2019)
  ☆117Updated 3 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆142Updated 3 months ago
• Dfam-consortium / TETools
  Dfam Transposable Element Tools Docker container.
  ☆100Updated last month
• EVidenceModeler / EVidenceModeler
  source code for EVM
  ☆118Updated 11 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆109Updated 2 years ago
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆161Updated 3 years ago
• KolmogorovLab / Severus
  A tool for somatic structural variant calling using long reads
  ☆147Updated last week
• Gabaldonlab / redundans
  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
  ☆160Updated 6 months ago
• adamewing / methylartist
  Tools for plotting methylation data in various ways
  ☆162Updated 2 weeks ago
• PacificBiosciences / trgt
  Tandem repeat genotyping and visualization from PacBio HiFi data
  ☆127Updated 3 months ago
• nanoporetech / ont_fast5_api
  Oxford Nanopore Technologies fast5 API software
  ☆154Updated last year