Alternatives and similar repositories for CEGA

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

• HuiyangYu / HFKReads
  An ultra-fast and efficient tool for high frequency kmer sequencing reads extraction
  ☆19Updated last year
• yilinZhang-bio / Watermelon-pangenome
  ☆27Updated 2 years ago
• noecochetel / North_American_Vitis_Pangenome
  Construct and Analyze the North American Vitis pangenome
  ☆29Updated 4 months ago
• tangerzhang / calc_switchErr
  ☆31Updated 9 months ago
• Atvar2 / plotHicGenome
  The tools are used for displaying hic signal of genome
  ☆24Updated 5 years ago
• Chenglin20170390 / Haplotype-diversity
  This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…
  ☆34Updated 2 months ago
• Jianwei-Zhang / DEGAP
  Dynamic Elongation of a Genome Assembly Path
  ☆25Updated last month
• yiliao1022 / SVGAP
  A pipeline for genomic variant detection with genome assemblies at population scale
  ☆35Updated 7 months ago
• jmsong2 / GenomeSyn
  We developed GenomeSyn as a new tool for constructing and visualizing genome synteny, its novel design and implementation can serve as a …
  ☆31Updated 4 years ago
• CMB-BNU / PloidyFrost
  reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph
  ☆18Updated 2 years ago
• jkimlab / DESCHRAMBLER
  ☆24Updated 2 months ago
• yangli557 / AnnoSINE
  SINE annotation tool for plant genomes
  ☆18Updated last year
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆24Updated 5 years ago
• qclian / Pan_Ath
  Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species r…
  ☆23Updated last year
• linguoliang / puzzle-hi-c
  ☆16Updated last year
• kavonrtep / dante
  Domain based annotation of transposable elements
  ☆21Updated 3 months ago
• amsession / Kmer-based-Subgenome-Mapping
  ☆21Updated last year
• legumeinfo / pandagma
  Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.
  ☆20Updated 2 weeks ago
• Adamtaranto / TRF2GFF
  Convert Tandem Repeat Finder dat file output into gff3 format
  ☆30Updated 2 months ago
• oushujun / PopTEvo
  Study of TE evolution in a population of genomes
  ☆10Updated 2 years ago
• wangziwei08 / LTR-insertion-time-estimation
  ☆16Updated 2 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆33Updated 2 years ago
• sudmantlab / amylase_diversity_project
  ☆21Updated last year
• wangzihell / IntroBlocker
  The IntroBlocker ancestry inference algorithm
  ☆17Updated 2 years ago
• Zhenlisme / heliano
  HELIANO is a software for detection and classification of Helitron-like elements.
  ☆32Updated 7 months ago
• Wenfei-Xian / TIPP
  Telomere local assembly, Improved whole genome polish, and Plastid assembly
  ☆22Updated 8 months ago
• amvarani / Plant_Annotation_TEs
  Methods and recipes for Plant Genome Annotation - Transposable Elements
  ☆20Updated 7 months ago
• Kirovez / pyTanFinder
  Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results
  ☆13Updated 6 years ago
• Xingyu-Liao / LongRepMarker_v2.0
  ☆15Updated 3 years ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆35Updated 3 years ago