Alternatives and similar repositories for TRF

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

• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆232Updated 7 months ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆216Updated last year
• lh3 / gfatools
  Tools for manipulating sequence graphs in the GFA and rGFA formats
  ☆237Updated last year
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆172Updated last year
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆223Updated 8 months ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆156Updated 6 months ago
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆157Updated 2 years ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆284Updated 10 months ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆275Updated 6 months ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆202Updated 6 months ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆141Updated last month
• wdecoster / chopper
  ☆208Updated 3 weeks ago
• BGI-Qingdao / TGS-GapCloser
  A gap-closing software tool that uses long reads to enhance genome assembly.
  ☆218Updated 11 months ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆298Updated 3 weeks ago
• dfguan / purge_dups
  haplotypic duplication identification tool
  ☆252Updated last year
• oushujun / LTR_retriever
  LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…
  ☆208Updated 2 months ago
• epi2me-labs / wf-human-variation
  ☆132Updated 2 weeks ago
• cgroza / GraffiTE
  GraffiTE is a pipeline that finds polymorphic transposable elements in genome assemblies and/or long reads, and genotypes the discovered …
  ☆197Updated 2 months ago
• ncbi / egapx
  Eukaryotic Genome Annotation Pipeline-External caller scripts and documentation
  ☆153Updated last month
• marbl / Winnowmap
  Long read / genome alignment software
  ☆297Updated 9 months ago
• lastz / lastz
  Program for aligning DNA sequences, a pairwise aligner.
  ☆227Updated 2 months ago
• HuiyangYu / PanDepth
  An ultra-fast and efficient genomic tool for coverage calculation
  ☆157Updated 5 months ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆219Updated last month
• PacificBiosciences / ccs
  CCS: Generate Highly Accurate Single-Molecule Consensus Reads (HiFi Reads)
  ☆121Updated last year
• VGP / vgp-assembly
  VGP repository for the genome assembly working group
  ☆194Updated 3 months ago
• nanoporetech / modkit
  A bioinformatics tool for working with modified bases
  ☆212Updated 2 weeks ago
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆178Updated 10 months ago
• Gabaldonlab / redundans
  Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
  ☆157Updated 4 months ago
• SunPengChuan / wgdi
  WGDI: A user-friendly toolkit for evolutionary analyses of whole-genome duplications and ancestral karyotypes
  ☆143Updated 7 months ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆160Updated 3 years ago