Alternatives and similar repositories for MEGAnE:

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

• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 8 months ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆65Updated 3 weeks ago
• cortes-ciriano-lab / ReConPlot
  ☆22Updated 4 months ago
• EichlerLab / svpop
  Variant annotation and merging pipeline
  ☆33Updated 3 weeks ago
• JialiUMassWengLab / TEMP
  TEMP is a software package for detecting transposable elements (TEs) insertions and excisions from pooled high-throughput sequencing dat…
  ☆22Updated 7 years ago
• zyndagj / BSMAPz
  Updated and optimized fork of BSMAP
  ☆22Updated 4 years ago
• phyloacc / PhyloAcc
  PhyloAcc a software to detect the changes of conservation of a genomic region
  ☆30Updated last week
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆47Updated 4 years ago
• Shians / NanoMethViz
  ☆27Updated last week
• weng-lab / TEMP2
  Algorithm to detect germline and de novo transposon insertions
  ☆28Updated 2 weeks ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆47Updated 2 years ago
• PacificBiosciences / sv-benchmark
  Public Benchmark of Long-Read Structural Variant Caller on PacBio CCS HG002 Data
  ☆51Updated 4 years ago
• rrazaghi / modbamtools
  Set of tools to manipulate and visualize modified base bam files
  ☆54Updated 2 years ago
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆24Updated 9 months ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆36Updated 8 years ago
• PacificBiosciences / HiFiCNV
  Copy number variant caller and depth visualization utility for PacBio HiFi reads
  ☆41Updated 6 months ago
• Nextomics / pipeline-for-isoseq
  A pipeline for isoseq
  ☆23Updated 6 years ago
• tobiasrausch / vc
  A tutorial on structural variant calling for short read sequencing data
  ☆32Updated 6 months ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆24Updated 11 months ago
• LeanQ / SPLITREADER
  Split-read pipeline for the identification of non-reference TE insertions with TSDs
  ☆25Updated 4 years ago
• HajkD / LTRpred
  De novo annotation of young retrotransposons
  ☆48Updated 3 years ago
• KolmogorovLab / minda
  ☆16Updated last week
• farhangus / Sniffles2_plot
  ☆30Updated 8 months ago
• ksahlin / isONcorrect
  Error correction of ONT transcript reads
  ☆58Updated last year
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆26Updated 5 years ago
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆52Updated last year
• ListerLab / TEPID
  Transposable element polymorphism identification
  ☆33Updated 4 years ago
• DrosophilaGenomeEvolution / TrEMOLO
  Transposable Elements MOvement detection using LOng reads
  ☆21Updated 4 months ago