Alternatives and similar repositories for TEPID

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

• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆47Updated 3 years ago
• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆25Updated 5 years ago
• PhHermann / LDJump
  R Package to Estimate Variable Recombination Rates using Population Genetic Data
  ☆44Updated 6 years ago
• DrosophilaGenomeEvolution / TrEMOLO
  Transposable Elements MOvement detection using LOng reads
  ☆25Updated 6 months ago
• EichlerLab / smrtsv2
  Structural variant caller
  ☆55Updated 4 years ago
• timplab / nanopore-methylation-utilities
  ☆30Updated 5 years ago
• NBISweden / Genome_Annotation_workflow
  A set of workflows written in Nextflow for Genome Annotation.
  ☆46Updated last week
• tanghaibao / allhic
  Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
  ☆60Updated last year
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆53Updated 5 years ago
• mfumagalli / ngsPopGen
  Population genetics analyses from NGS data
  ☆26Updated 4 years ago
• schneebergerlab / AMPRIL-genomes
  scripts for the project of seven thaliana genomes assembly
  ☆42Updated 4 years ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆35Updated 2 years ago
• llecompte / SVJedi
  SV genotyping with long reads
  ☆40Updated 2 years ago
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 7 years 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…
  ☆28Updated 7 years ago
• oushujun / MTEC
  A repo contains historical and updated MTEC libraries.
  ☆18Updated 6 years ago
• josephryan / estimate_genome_size.pl
  Scripts to estimate genome size and coverage from kmer distribution generated by jellyfish
  ☆57Updated 3 years ago
• johnssproul / RepeatProfiler
  ☆27Updated 11 months ago
• stschiff / msmc-tools
  Tools and Utilities for msmc and msmc2
  ☆50Updated 2 weeks 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 8 years ago
• enormandeau / gawn
  Genome Annotation Without Nightmares
  ☆46Updated last week
• joepickrell / pophistory-tutorial
  Tutorial on using popular tools for learning about population history
  ☆53Updated 7 years ago
• MeHelmy / princess
  ☆84Updated 11 months ago
• johanzi / gwas_gemma
  Perform GWAS with gemma in a simple pipeline
  ☆27Updated 9 months ago
• auton1 / LDhat
  Estimate recombination rates from population genetic data
  ☆71Updated 5 years ago
• sansubs / vcf2pop
  ☆29Updated last year
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 7 years ago
• phasegenomics / hic_qc
  A (very) simple script to QC Hi-C data.
  ☆26Updated last year
• mcstitzer / maize_v4_TE_annotation
  scripts and intermediate files used to annotate TEs in Jiao et al.
  ☆34Updated 7 years ago
• tsackton / linked-selection
  ☆24Updated 8 years ago