Alternatives and similar repositories for TEFLoN

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

• jydu / maffilter
  The MafFilter genome alignment processor
  ☆19Updated 6 months ago
• wtsi-hpag / scanPAV
  Pipeline to detect PAVs (presence/absence variations) in genome comparison using whole genome alignment.
  ☆29Updated 7 years ago
• vgteam / sv-genotyping-paper
  ☆31Updated 6 years ago
• esolares / HapSolo
  Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding
  ☆20Updated 9 months ago
• Zhuxitong / ppsPCP
  A Plant Presence/absence Variants Scanner and Pan-genome Construction Pipeline
  ☆27Updated 4 years ago
• GLBRC / sppIDer
  a tool to identify species and inter-species hybrids and chromosome copy number variants from short-read data
  ☆19Updated 6 years ago
• ksiewert / BetaScan
  Genome-wide scan for balancing selection using beta statistic
  ☆29Updated 2 years ago
• AndreaGuarracino / paf2chain
  convert PAF format to CHAIN format
  ☆33Updated 6 months ago
• andreaminio / HaploSync
  Tools for haplotype-wise reconstruction of pseudomolecules
  ☆22Updated 3 months ago
• SamueleSoraggi / HMMploidy
  A tool to calculate ploidy levels from genotype likelihoods and coverage using Hidden Markov Models
  ☆18Updated 3 years ago
• baoxingsong / genomeAlignment
  Compare different genome alignment tools using a wide range of genomes with different complexities.
  ☆14Updated 3 years ago
• compbiol / CAMSA
  CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
  ☆24Updated 5 years ago
• mkirsche / Iris
  A module for improving the insertion sequences of structural variant calls
  ☆32Updated 4 years ago
• pangenome / vcfbub
  use variant nesting information to flter overlapping sites from vg deconstruct output
  ☆30Updated 5 months ago
• 4ureliek / TEorthology
  Script to help assessing the evolutionary history of a TE family
  ☆16Updated 6 years ago
• seryrzu / centroFlye
  An algorithm for centromere assembly using long error-prone reads
  ☆25Updated 4 years ago
• dfguan / pin_hic
  A Hi-C scaffolding method
  ☆22Updated 3 years ago
• ComparativeGenomicsToolkit / hal2vg
  Convert HAL to VG
  ☆23Updated last year
• VIB-PSB / ksrates
  ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…
  ☆20Updated 2 months ago
• LeilyR / Multi-genome-Reference
  A program to generate a graph which presents a simplified representation of several full length genomes
  ☆13Updated 7 years ago
• mrvollger / NucFreq
  ☆38Updated 2 months ago
• owensgl / reformat
  Scripts for reformatting data. Mainly from tab separated to an esoteric program specific format
  ☆13Updated 9 months ago
• KolmogorovLab / hapdiff
  SV calling for diploid assemblies
  ☆29Updated last year
• nextgenusfs / redmask
  Genome assembly soft-masking using Red (REpeat Detector)
  ☆18Updated 7 years ago
• ablab / TandemTools
  Tool for assessing/improving assembly quality in extra-long tandem repeats
  ☆47Updated 4 years ago
• kristinmlee / dmc
  Distinguishing among modes of convergent adaptation using population genomic data: statistical inference method, extensions, and examples
  ☆13Updated 6 years ago
• avaughn271 / CLUES2
  The GitHub for CLUES2, a method for inferring and evaluating evidence for selection.
  ☆16Updated 8 months ago
• Sendrowski / fastDFE
  Fast and flexible inference of the distribution of fitness effects (DFE), VCF-SFS parsing with ancestral allele and site-degeneracy annot…
  ☆18Updated last week
• amvarani / Plant_Annotation_TEs
  Methods and recipes for Plant Genome Annotation - Transposable Elements
  ☆20Updated 5 months ago
• PacificBiosciences / pbipa
  Improved Phased Assembler
  ☆28Updated 3 years ago