Alternatives and similar repositories for CNEFinder:

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

• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆56Updated last week
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆22Updated 4 months ago
• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆24Updated 4 years ago
• jkimlab / mySyntenyPortal
  A stand-alone application for constructing websites for visualizing and browsing synteny blocks
  ☆18Updated 4 years ago
• clemgoub / rm2gff3
  Convert RepeatMasker ".out" file into a gff3 with colors!!!
  ☆20Updated 4 years ago
• hillerlab / CESAR2.0
  ☆28Updated 2 years ago
• oushujun / MTEC
  A repo contains historical and updated MTEC libraries.
  ☆17Updated 5 years ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 2 years ago
• lauguma / GWideCodeML
  A Python package for testing evolutionary hypotheses in genome-wide approaches.
  ☆31Updated 3 years ago
• sanjaynagi / rna-seq-pop
  Snakemake workflow for Illumina RNA-sequencing experiments - extract population genomic signals from RNA-Seq data
  ☆18Updated 2 months ago
• hahnlab / CAGEE
  Computational Analysis of Gene Expression Evolution
  ☆36Updated this week
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆33Updated 4 years ago
• vpc-ccg / sedef
  Identification of segmental duplications in the genome
  ☆26Updated 2 years ago
• JialiUMassWengLab / TEMP
  TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…
  ☆21Updated 7 years ago
• vgteam / sv-genotyping-paper
  ☆30Updated 5 years ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆19Updated 3 months ago
• yiliao1022 / LASTZ_SV_pipeline
  ☆16Updated 5 years ago
• eswlab / orphan-prediction
  methods for orphan gene prediction paper optimization
  ☆25Updated 3 years ago
• Xinglab / TideHunter
  TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
  ☆20Updated 8 months ago
• reubwn / collinearity
  scripts to parse and analyse MCScanX collinearity output
  ☆30Updated 4 years ago
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆21Updated 7 months ago
• wen-biao / OM-HiC-scaffolding
  Workflows for correcting and scaffolding long-read (PacBio, nanopore) genome assemblies using optical mapping and/or Dovetail Hi-C data
  ☆20Updated 4 years ago
• vgteam / giraffe-sv-paper
  ☆42Updated 9 months ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• farhangus / Sniffles2_plot
  ☆28Updated 6 months ago
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆26Updated 2 months ago
• marieBvr / TEs_genes_relationship_pipeline
  Distribution of TEs and their relationship to genes in host genome
  ☆22Updated last year
• Rosemeis / HaploNet
  Haplotype and population structure inference using neural networks.
  ☆27Updated 2 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 …
  ☆25Updated 3 years ago
• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆24Updated last year