Alternatives and similar repositories for TEtools:

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

• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆26Updated 5 years ago
• mchowdh200 / samplot-ml
  ☆22Updated 3 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 4 years ago
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆30Updated 5 months ago
• eswlab / orphan-prediction
  methods for orphan gene prediction paper optimization
  ☆25Updated 3 years ago
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 6 years ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆54Updated last year
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆33Updated 4 years ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆33Updated last year
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• Shians / NanoMethViz
  ☆26Updated 2 weeks ago
• HajkD / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 2 years ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆32Updated 2 months ago
• schneebergerlab / AMPRIL-genomes
  scripts for the project of seven thaliana genomes assembly
  ☆38Updated 3 years ago
• johnssproul / RepeatProfiler
  ☆24Updated last month
• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆24Updated 4 years ago
• tvkent / GERPplusplus
  GERP++ code from Sidow Lab modified by Kevin Thornton to compile properly.
  ☆20Updated 8 years ago
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 7 months ago
• tsackton / linked-selection
  ☆24Updated 7 years ago
• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆60Updated 2 months ago
• timplab / nanopore-methylation-utilities
  ☆29Updated 4 years ago
• hahnlab / CAGEE
  Computational Analysis of Gene Expression Evolution
  ☆39Updated last week
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆40Updated 5 months ago
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆38Updated 3 weeks ago
• sestaton / tephra
  A tool for discovering transposable elements and describing patterns of genome evolution
  ☆30Updated last year
• niccw / repeatcraftp
  meta-pipeline for repetitive element de-fragmentation and annotation
  ☆24Updated 4 years ago
• hillerlab / CESAR2.0
  ☆28Updated 2 years ago
• AppliedBioinformatics / runBNG
  An easy way to run BioNano genomic analysis
  ☆27Updated 3 years ago
• mapleforest / HaploMerger2
  ☆43Updated 8 years ago
• HullUni-bioinformatics / TE-search-tools
  Python wrappers for programs that search for transposable elements
  ☆19Updated 8 years ago