Alternatives and similar repositories for orphan-prediction

Users that are interested in orphan-prediction are comparing it to the libraries listed below

• schneebergerlab / AMPRIL-genomes
  scripts for the project of seven thaliana genomes assembly
  ☆42Updated 4 years ago
• obenno / ShinySyn
  A shiny application to visualize MCscan result
  ☆38Updated 3 years ago
• vgteam / giraffe-sv-paper
  ☆44Updated last year
• cfarkas / annotate_my_genomes
  A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
  ☆30Updated last year
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated last year
• wjian8 / psvcp_v1.01
  Pan-genome Construction and Population Structure Variation Calling pipeline
  ☆45Updated last year
• HuffordLab / GenomeQC
  ☆35Updated 5 years ago
• fanagislab / EndHiC
  EndHic is a fast and easy-to-use Hi-C scaffolding tool, using the Hi-C links from contig end regions instead of whole contig regions to a…
  ☆25Updated 2 years ago
• johnssproul / RepeatProfiler
  ☆27Updated 11 months ago
• bergmanlab / TELR
  TELR is a fast non-reference transposable element detector from long read sequencing data.
  ☆35Updated 2 years ago
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆30Updated 4 months ago
• baozg / phased-assembly-check
  ☆32Updated last year
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 7 years ago
• baoxingsong / GEAN
  This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.
  ☆45Updated 2 years ago
• zeeev / smartie-sv
  calling SVs from Blasr contig level alignments
  ☆54Updated 7 years ago
• lauguma / GWideCodeML
  A Python package for testing evolutionary hypotheses in genome-wide approaches.
  ☆33Updated 4 years ago
• molevol-ub / bitacora
  BITACORA: A Bioinformatics tool for gene family annotation
  ☆53Updated last month
• JanaSperschneider / FindTelomeres
  A python script for finding telomeric repeats (TTAGGG/CCCTAA) in FASTA files
  ☆36Updated 3 years ago
• sjteresi / TE_Density
  Python script calculating transposable element density for all genes in a genome. Publication: https://mobilednajournal.biomedcentral.com…
  ☆37Updated last year
• weigelworld / pan-nlrome
  The GitHub repository for the A. thaliana pan-NLR'ome project.
  ☆18Updated 6 years ago
• CarineRey / pcoc
  Convergent substitution detection tool based on the PCOC model
  ☆31Updated 4 years ago
• vgteam / sv-genotyping-paper
  ☆31Updated 6 years ago
• Yandell-Lab / maker
  Genome Annotation Pipeline
  ☆42Updated last year
• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆27Updated 2 years ago
• jonassibbesen / rpvg
  Method for inferring path posterior probabilities and abundances from pangenome graph read alignments
  ☆59Updated 5 months ago
• clemgoub / dnaPipeTE
  dnaPipeTE (for de-novo assembly & annotation Pipeline for Transposable Elements), is a pipeline designed to find, annotate and quantify T…
  ☆59Updated 2 years ago
• INTABiotechMJ / MITE-Tracker
  MITE Tracker: An accurate approach to identify miniature inverted-repeat transposable elements in large genomes
  ☆20Updated last year
• drostlab / LTRpred
  De novo annotation of young retrotransposons
  ☆47Updated 3 years ago
• yiliao1022 / SVGAP
  A pipeline for genomic variant detection with genome assemblies at population scale
  ☆36Updated 8 months ago
• Chenglin20170390 / Haplotype-diversity
  This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…
  ☆34Updated 3 months ago