Alternatives and similar repositories for GenEra

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

• hahnlab / CAGEE
  Computational Analysis of Gene Expression Evolution
  ☆44Updated 4 months ago
• cfarkas / annotate_my_genomes
  A genome annotation pipeline that use short and long sequencing reads alignments from animal genomes
  ☆30Updated last year
• almeidasilvaf / syntenet
  An R package to infer and analyze synteny networks from protein sequences
  ☆36Updated 4 months ago
• lauguma / GWideCodeML
  A Python package for testing evolutionary hypotheses in genome-wide approaches.
  ☆32Updated 4 years ago
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆32Updated last year
• veg / hyphy-analyses
  HyPhy standalone analyses
  ☆49Updated 3 months ago
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated 3 months ago
• salzberg-lab / PSAURON
  PSAURON is a machine learning model for rapid assessment of protein coding gene annotation
  ☆47Updated last week
• Rinoahu / SwiftOrtho
  A high performance tool to identify orthologs and paralogs across genomes.
  ☆27Updated 2 years ago
• Gabaldonlab / perSVade
  perSVade: personalized Structural Variation detection
  ☆40Updated 3 months ago
• harta55 / EnTAP
  EnTAP is moving to GitLab for future changes https://gitlab.com/PlantGenomicsLab/EnTAP
  ☆41Updated 10 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆69Updated 3 weeks ago
• hsinnan75 / GSAlign
  GSAlign: an ultra-fast sequence alignment algorithm for intra-species genome comparison
  ☆60Updated last year
• Ensembl / plant-scripts
  Scripting analyses of genomes in Ensembl Plants
  ☆40Updated 2 months ago
• dvdylus / read2tree
  ☆20Updated 3 years ago
• formbio / FLAG
  ☆33Updated last year
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆33Updated 3 years ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆86Updated this week
• almeidasilvaf / doubletrouble
  An R package to identify and classify duplicated genes from whole-genome protein sequence data
  ☆30Updated 3 months ago
• simonwhelan / Divvier
  A program for divvying or partially filtering multiple sequence alignments
  ☆27Updated 6 years ago
• sanger-tol / yahs
  Yet another Hi-C scaffolding tool
  ☆22Updated last year
• MariaNattestad / dot
  Dot: An interactive dot plot viewer for comparative genomics
  ☆35Updated 2 years ago
• mongiardino / genesortR
  Sorting and subsampling phylogenomic datasets
  ☆28Updated 8 months ago
• groupschoof / AHRD
  High throughput protein function annotation with Human Readable Description (HRDs) and Gene Ontology (GO) Terms.
  ☆67Updated 2 years ago
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆51Updated last month
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆56Updated last week
• davidemms / STRIDE
  STRIDE: Species Tree Root Inference from Gene Duplication Events
  ☆11Updated 7 years ago
• dwinter / repeatR
  read and analyse RepeatMasker output
  ☆27Updated 2 years ago