Alternatives and similar repositories for TEspeX:

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

• DecodeGenetics / svimmer
  Structural variant merging tool
  ☆49Updated 7 months ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆24Updated 10 months ago
• LappalainenLab / lorals_paper_code
  ☆23Updated 2 years ago
• parklab / LiRA
  ☆18Updated 3 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆39Updated last week
• zhongw2 / GeneTEFlow
  ☆23Updated 3 years ago
• XiDsLab / TAGET
  ☆17Updated 2 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆27Updated last year
• alexchwong / SpliceWiz
  SpliceWiz is an R package for exploring differential alternative splicing events in splice-aware alignment BAM files.
  ☆17Updated 3 weeks ago
• rvolden / Mandalorion-Episode-II
  Version II of Mandalorion
  ☆32Updated 6 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆31Updated last year
• adamewing / tldr
  Identify and annotate TE-mediated insertions in long-read sequence data
  ☆41Updated last year
• LappalainenLab / lorals
  ☆33Updated last year
• seqcode / allo
  Allo: a multi-mapped read rescue strategy for gene regulatory analyses
  ☆24Updated 6 months ago
• OliveiraDS-hub / ChimeraTE
  A pipeline to detect chimeric transcripts derived from genes and transposable elements.
  ☆23Updated 8 months ago
• josiegleeson / BamSlam
  Summarise and plot data from long-read ONT (direct RNA/cDNA) BAM files
  ☆14Updated 11 months ago
• XiaoTaoWang / TADLib
  A Library to Explore Chromatin Interaction Patterns for Topologically Associating Domains
  ☆41Updated 2 years ago
• dixonlab / hic_breakfinder
  ☆36Updated 5 years ago
• SziKayLeung / Whole_Transcriptome_Paper
  ☆18Updated 11 months ago
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆26Updated 5 years ago
• cortes-ciriano-lab / ReConPlot
  ☆21Updated 3 months ago
• schatzlab / crossstitch
  Code for phasing SVs with SNPs
  ☆52Updated 5 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆45Updated 2 years ago
• Shians / NanoMethViz
  ☆26Updated 3 weeks ago
• BlanchetteLab / HIFI
  Hi-C Interaction Frequency Inference (HIFI): High-resolution estimation of DNA-DNA interaction frequency from Hi-C data
  ☆23Updated 2 years 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
• mortazavilab / cerberus
  ☆18Updated 8 months ago
• weng-lab / TEMP2
  Algorithm to detect germline and de novo transposon insertions
  ☆27Updated 11 months ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆31Updated 3 years ago
• ma-compbio / Phylo-HMRF
  ☆16Updated 4 years ago