Alternatives and similar repositories for NUMTs-detection:

Users that are interested in NUMTs-detection are comparing it to the libraries listed below

• tvkent / GERPplusplus
  GERP++ code from Sidow Lab modified by Kevin Thornton to compile properly.
  ☆20Updated 8 years ago
• schneebergerlab / AMPRIL-genomes
  scripts for the project of seven thaliana genomes assembly
  ☆38Updated 3 years ago
• ChenHuaLab / fastHaN
  fastHaN is a fast and scalable program for constructing haplotype networks for large samples
  ☆12Updated 11 months ago
• AnimalGenomicsETH / bovine-graphs
  Integrate multiple genome assemblies into a pangenome graph
  ☆32Updated 2 years ago
• eswlab / orphan-prediction
  methods for orphan gene prediction paper optimization
  ☆25Updated 3 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 4 years ago
• jkimlab / DESCHRAMBLER
  ☆21Updated 10 months ago
• MorrellLAB / BAD_Mutations
  Deleterious mutation prediction pipeline
  ☆13Updated last month
• baozg / phased-assembly-check
  ☆28Updated 2 weeks ago
• lurebgi / chicken-T2T
  Scripts that used in our chicken T2T manuscript.
  ☆19Updated last year
• Jianwei-Zhang / DEGAP
  Dynamic Elongation of a Genome Assembly Path
  ☆20Updated 8 months ago
• LAILAB-CAU / update-Mo17
  ☆23Updated last year
• baozg / assembly-annotation-pipeline
  Plant genome assembly and annotation pipeline using snakemake
  ☆35Updated last year
• qclian / Pan_Ath
  Code for Article "A pan-genome of 69 Arabidopsis thaliana accessions reveals a conserved genome structure throughout the global species r…
  ☆17Updated 7 months ago
• Longhui-Ren / Ancestral_Genome_Reconstruction
  Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO
  ☆13Updated 6 years ago
• chenym1 / genetribe
  A tool for performing collinearity-incorporating homology inference
  ☆28Updated last year
• lurebgi / BOPsexChr
  Analyses of sex chromosome evolution in songbirds
  ☆15Updated 5 years ago
• mongiardino / genesortR
  Sorting and subsampling phylogenomic datasets
  ☆21Updated 11 months ago
• MorrellLAB / File_Conversions
  Scripts to convert between file formats for various analyses
  ☆14Updated 5 months ago
• rivasiker / autocoalhmm
  Automated pipeline for running CoalHMM
  ☆11Updated last year
• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆24Updated last year
• wjian8 / psvcp_v1.01
  Pan-genome Construction and Population Structure Variation Calling pipeline
  ☆36Updated 4 months ago
• WarrenLab / chicken-pangenome-paper
  Scripts used to perform analyses in Rice et al. (2023)
  ☆15Updated last year
• obenno / ShinySyn
  A shiny application to visualize MCscan result
  ☆34Updated 2 years ago
• ellenbell / FasTE
  A quick user guide for de novo transposable element (TE) library generation and TE screening. Utilising; the Extensive de novo TE Annotat…
  ☆27Updated 2 years ago
• XuewenWangUGA / GMATA
  Software GMATA for SSR mining, marker designing, genotyping, plot etc.
  ☆12Updated 5 months ago
• Kirovez / pyTanFinder
  Python scripts to run tandem repeat finder program (Benson, 1999) and parse the results
  ☆12Updated 5 years ago
• jkimlab / mySyntenyPortal
  A stand-alone application for constructing websites for visualizing and browsing synteny blocks
  ☆18Updated 4 years ago
• SwallowGenomics / BarnSwallow
  ☆13Updated last year
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 6 years ago