Alternatives and similar repositories for TE-Aid:

Users that are interested in TE-Aid are comparing it to the libraries listed below

• c-zhou / oatk
  A organelle de novo genome assembly toolkit
  ☆55Updated 3 weeks ago
• GonzalezLab / MCHelper
  MCHelper: An automatic tool to curate transposable element libraries
  ☆33Updated 3 months ago
• yeeus / GCI
  A program for assessing the T2T genome continuity
  ☆69Updated 2 weeks ago
• PacificBiosciences / pbtk
  PacBio BAM toolkit
  ☆40Updated 3 weeks ago
• daewoooo / SVbyEye
  ☆76Updated 3 weeks ago
• obenno / ShinySyn
  A shiny application to visualize MCscan result
  ☆35Updated 2 years ago
• TF-Chan-Lab / panGraphViewer
  Show pangenome graphs in an easy way
  ☆55Updated 2 years ago
• mapleforest / HaploMerger2
  ☆43Updated 8 years ago
• santiagosnchez / vcf2fasta
  Converts a VCF file to a FASTA alignment provided a reference genome and a GFF file
  ☆49Updated 5 months ago
• Gaius-Augustus / TSEBRA
  TSEBRA: Transcript Selector for BRAKER
  ☆47Updated 4 months ago
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆38Updated 3 weeks ago
• 0xTCG / biser
  A fast tool for detecting and decomposing segmental duplications in genome assemblies
  ☆47Updated last year
• marschall-lab / panacus
  Panacus is a tool for computing statistics for GFA-formatted pangenome graphs
  ☆98Updated this week
• bcgsc / ntSynt
  Detecting multi-genome synteny using minimizer graph mapping
  ☆76Updated 2 months 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
• 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
• arangrhie / merfin
  Evaluate variant calls and its combination with k-mer multiplicity
  ☆65Updated 2 years ago
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆30Updated 5 months ago
• dwinter / pafr
  Read, manipulate and visualize 'Pairwise mApping Format' data in R
  ☆71Updated 3 years ago
• Plant-Food-Research-Open / assemblyqc
  A Nextflow pipeline for evaluating assembly quality
  ☆30Updated last week
• Adamtaranto / teloclip
  A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
  ☆35Updated 2 months ago
• CSU-KangHu / HiTE
  High-precision TE Annotator
  ☆103Updated 2 weeks ago
• HuffordLab / GenomeQC
  ☆32Updated 4 years ago
• annaprotasio / TE_ManAnnot
  Accompanying repository for our publications on manual curation methods for Transposable Elements.
  ☆20Updated 8 months ago
• ngarud / SelectionHapStats
  SelectionHapStats is a repository of Python scripts written to identify natural selection events in the genome and R scripts written to v…
  ☆26Updated 6 years ago
• qjiangzhao / TEtrimmer
  TEtrimmer: a novel tool to automate manual curation of transposable elements
  ☆66Updated last week
• rhysf / Synima
  Synteny Imager
  ☆60Updated 6 months ago
• kjenike / panagram
  ☆61Updated this week
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆33Updated 2 years ago
• hillerlab / make_lastz_chains
  Portable solution to generate genome alignment chains using lastz
  ☆55Updated 5 months ago