Alternatives and similar repositories for tebreak

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

• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆42Updated last month
• derijkp / scywalker
  A program for the analysis of single cell nanopore long read data
  ☆19Updated last month
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆61Updated 9 months ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• LappalainenLab / lorals
  ☆36Updated 2 years ago
• khuang28jhu / bs3
  BS-Seeker3: An Ultra-fast, Versatile Pipeline for Mapping Bisulfite-treated Reads.
  ☆27Updated 6 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 4 months ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆60Updated 2 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• Xinglab / espresso
  ☆62Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆23Updated 7 months ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆39Updated 3 years ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆47Updated 2 years ago
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆62Updated 3 months ago
• TrinityCTAT / CTAT-LR-fusion
  fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector
  ☆22Updated last week
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆50Updated last year
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆46Updated 4 months ago
• dixonlab / hic_breakfinder
  ☆36Updated 5 years ago
• fritzsedlazeck / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆48Updated 5 years ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 9 months ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆31Updated 2 years ago
• zhqingit / giremi
  GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.
  ☆44Updated 8 years ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆14Updated last year
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆63Updated 3 weeks ago
• wyang17 / SQuIRE
  Software for Quantifying Interspersed Repeat Expression
  ☆60Updated 3 years ago
• AmpliconSuite / CoRAL
  Reconstruction of focal amplifications with long reads
  ☆21Updated 2 weeks ago
• fakedrtom / SVAFotate
  ☆43Updated 10 months ago
• smarco / gem3-mapper
  GEM-Mapper v3
  ☆58Updated 4 months ago
• deLaatLab / pipe4C
  4C-seq processing pipeline
  ☆23Updated 4 months ago