Alternatives and similar repositories for synphoni

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

• jsdoublel / DISCO
  Decomposition Into Single-COpy gene trees (DISCO) is a method for decomposing multi-copy gene-family trees while attempting to preserve o…
  ☆10Updated last month
• zhangrengang / SOI
  Robust identification of orthologous Synteny with the Orthology Index
  ☆23Updated last week
• slimsuite / diploidocus
  Diploid genome assembly analysis tools
  ☆14Updated 10 months ago
• bcgsc / ntSynt-viz
  Multi-genome synteny block visualization tool
  ☆42Updated 5 months ago
• slimsuite / buscomp
  BUSCOMP: BUSCO Compiler and Comparison tool
  ☆21Updated 10 months ago
• Rowena-h / BUSCOfilter
  A tool to filter BUSCO output into single-copy gene files for phylogenomics
  ☆13Updated 11 months ago
• h836472 / ContScout
  ContScout sequence contamination filter tool
  ☆20Updated last month
• JLSteenwyk / orthosnap
  a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
  ☆26Updated 5 months ago
• Longhui-Ren / Ancestral_Genome_Reconstruction
  Instruction and scripts for reconstructing ancestral genome from pairwise syntenic blocks using MLGO
  ☆13Updated 6 years ago
• merlyescalona / yagcloser
  YAGCloser: Yet-Another-Gap-Closer based on spanning of long reads.
  ☆12Updated 2 years ago
• cchauve / ANGeS
  Reconstruction of ancestral genome maps
  ☆16Updated 7 years ago
• kavonrtep / dante
  Domain based annotation of transposable elements
  ☆19Updated 2 months ago
• pnatsi / OGFilter
  A script that parses the OrthoFinder output and keeps only the orthogroups that meet specific criteria
  ☆17Updated 4 years ago
• xiekunwhy / kmerDedup
  Reduce genome assembly redundancy using shared mapped k-mer method.
  ☆15Updated 2 months ago
• schmeing / gapless
  Gapless provides combined scaffolding, gap-closing and assembly correction with long reads
  ☆35Updated 2 years ago
• simonhmartin / asynt
  Genome alignment and synteny plots
  ☆30Updated 2 years ago
• PuttickMacroevolution / MCMCtreeR
  MCMCtreeR: A package to estimate distribution values for temporal node constraints and prepare input files for MCMCtree
  ☆45Updated 5 years ago
• at-cg / RAFT
  ☆25Updated 10 months ago
• panlab-bioinfo / Gap-Aid
  ☆12Updated 2 weeks ago
• MrTomRod / orthofinder-tools
  Tools to process OrthoFinder output: Calculate the most common gene name of an orthogroup by majority vote and create plots analogous to …
  ☆19Updated last year
• bayesiancook / phylobayes
  PhyloBayes: phylogenetic reconstruction using infinite mixtures (CAT and CAT-GTR) -- serial version (for MPI, see pbmpi.git)
  ☆15Updated 3 years ago
• CAFS-bioinformatics / P_RNA_scaffolder
  use paired-end transcriptome reads to scaffold genomes
  ☆11Updated 6 years ago
• CMB-BNU / PloidyFrost
  reference-free estimation of ploidy level from whole genome sequencing data based on de Bruijn graph
  ☆17Updated last year
• jkimlab / DESCHRAMBLER
  ☆24Updated last year
• JLSteenwyk / orthofisher
  a broadly applicable tool for automated gene identification and retrieval
  ☆32Updated 7 months ago
• makovalab-psu / DiscoverY
  K-mer based classifier for Y-contig identification from Whole Genome Assemblies
  ☆12Updated 5 years ago
• TimothyStephens / Dinoflagellate_Annotation_Workflow
  Dinoflagellate Annotation Workflow
  ☆15Updated 2 years ago
• fanagislab / kmerfreq
  kmerfreq count K-mer (with size K) frequency from the input sequence data, typically sequencing reads data, and refe rence genome data is…
  ☆19Updated 5 years ago
• zy-optimistic / GAEP
  A genome assembly assessment pipeline.
  ☆37Updated last year
• sc-zhang / CATG
  CATG (Collinearity-based Assembly correcTor GUI) is a tool that can correct genome assembly with collinearity and generate tour files for…
  ☆17Updated 5 months ago