Alternatives and similar repositories for TEPID

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

• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆25Updated 4 years ago
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆42Updated 5 years ago
• enormandeau / gawn
  Genome Annotation Without Nightmares
  ☆46Updated 6 months ago
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆51Updated 7 years ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 7 years ago
• DrosophilaGenomeEvolution / TrEMOLO
  Transposable Elements MOvement detection using LOng reads
  ☆22Updated 2 weeks ago
• oushujun / MTEC
  A repo contains historical and updated MTEC libraries.
  ☆18Updated 5 years ago
• mscampbell / Genome_annotation
  These are scripts that I use frequently in genome annotation projects. Some of them have evolved awkwardly so the code is difficult to fo…
  ☆16Updated 7 years ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆54Updated 3 years ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆33Updated 2 years ago
• phasegenomics / hic_qc
  A (very) simple script to QC Hi-C data.
  ☆26Updated 7 months ago
• caulilin / QTG_Seq
  ☆22Updated 6 years ago
• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆60Updated 7 months ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆48Updated this week
• mojaveazure / angsd-wrapper
  Utilities for analyzing next generation sequencing data
  ☆17Updated 6 years ago
• johnssproul / RepeatProfiler
  ☆26Updated 5 months ago
• schneebergerlab / AMPRIL-genomes
  scripts for the project of seven thaliana genomes assembly
  ☆40Updated 4 years ago
• MeHelmy / princess
  ☆81Updated 5 months ago
• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆24Updated 2 years ago
• Nextomics / nextsv
  ☆35Updated last year
• yangjl / pseudoRef
  Make Pseudo-Reference Genome from VCF/BCF
  ☆14Updated 4 years ago
• hillerlab / GeneLossPipe
  ☆24Updated 2 years ago
• tpook92 / HaploBlocker
  R-package: Calculation of haplotype blocks and libraries
  ☆32Updated 2 weeks ago
• tsackton / linked-selection
  ☆24Updated 8 years ago
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 7 years ago
• JiangYuLab / CNVcaller
  ☆42Updated last year
• vgteam / giraffe-sv-paper
  ☆42Updated last year
• cboursnell / crb-blast
  Conditional Reciprocal Best Blast
  ☆41Updated 8 years ago