Alternatives and similar repositories for Comparative-Annotation-Toolkit:

Users that are interested in Comparative-Annotation-Toolkit are comparing it to the libraries listed below

• tpoorten / dotPlotly
  Generate an interactive dot plot from mummer or minimap alignments
  ☆195Updated last year
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆240Updated 2 months ago
• marbl / SALSA
  SALSA: A tool to scaffold long read assemblies with Hi-C data
  ☆183Updated 8 months ago
• tangerzhang / ALLHiC
  ALLHiC: phasing and scaffolding polyploid genomes based on Hi-C data
  ☆174Updated 3 months ago
• ComparativeGenomicsToolkit / hal
  Hierarchical Alignment Format
  ☆166Updated last month
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated 3 weeks ago
• yfukasawa / LongQC
  LongQC is a tool for the data quality control of the PacBio and ONT long reads.
  ☆155Updated last year
• marcelauliano / MitoHiFi
  Find, circularise and annotate mitogenome from PacBio assemblies
  ☆174Updated 2 weeks ago
• malonge / RaGOO
  RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag
  ☆172Updated 3 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆200Updated 3 months ago
• PacificBiosciences / pbmm2
  A minimap2 frontend for PacBio native data formats
  ☆178Updated last month
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆138Updated last year
• nanoporetech / pipeline-structural-variation
  Pipeline for calling structural variations in whole genomes sequencing Oxford Nanopore data
  ☆114Updated 3 years ago
• jtlovell / GENESPACE
  ☆197Updated this week
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆106Updated last year
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆133Updated 3 years ago
• KamilSJaron / smudgeplot
  Inference of ploidy and heterozygosity structure using whole genome sequencing data
  ☆256Updated last week
• wdecoster / chopper
  ☆165Updated 4 months ago
• aidenlab / 3d-dna
  3D de novo assembly (3D DNA) pipeline
  ☆207Updated last year
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆230Updated last year
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆123Updated 4 years ago
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆200Updated 3 weeks ago
• PacificBiosciences / pbsv
  pbsv - PacBio structural variant (SV) calling and analysis tools
  ☆132Updated 3 months ago
• TobyBaril / EarlGrey
  Earl Grey: A fully automated TE curation and annotation pipeline
  ☆152Updated this week
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆294Updated 2 months ago
• HKU-BAL / Clair3
  Clair3 - Symphonizing pileup and full-alignment for high-performance long-read variant calling
  ☆255Updated 3 weeks ago
• epi2me-labs / wf-transcriptomes
  ☆83Updated 3 weeks 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…
  ☆140Updated 2 months ago
• biocorecrg / master_of_pores
  Nextflow pipeline for analysis of direct RNA Nanopore reads
  ☆100Updated last month
• oushujun / LTR_retriever
  LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also…
  ☆195Updated 3 weeks ago