Alternatives and similar repositories for wgbs-pipeline

Users that are interested in wgbs-pipeline are comparing it to the libraries listed below

• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• dnaase / Bis-tools
  A collection of tools to deal with Bisulfite-seq/NOMe-seq (SNP/Methylation calling: BisSNP; HMM segmentation: DMNTools; Visualization/Clu…
  ☆32Updated 3 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆50Updated 3 weeks ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆60Updated 3 months ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 5 months ago
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 2 years ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆63Updated 11 months ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 10 years ago
• wososa / PSI-Sigma
  PSI-Sigma
  ☆38Updated last year
• Xinglab / espresso
  ☆63Updated last year
• nloyfer / UXM_deconv
  ☆46Updated 2 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆43Updated this week
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 11 months ago
• sartorlab / methylSig
  R package for DNA methylation analysis
  ☆19Updated last year
• sdchandra / CNAclinic
  ☆25Updated last year
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• nerettilab / RepEnrich2
  RepEnrich2 is an updated method to estimate repetitive element enrichment using high-throughput sequencing data.
  ☆40Updated 3 years ago
• iprada / Circle-Map
  A method for circular DNA detection based on probabilistic mapping of ultrashort reads
  ☆66Updated last year
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆54Updated 3 months ago
• gatk-workflows / gatk4-rnaseq-germline-snps-indels
  Workflows for processing RNA data for germline short variant discovery with GATK v4 and related tools
  ☆80Updated 4 years ago
• huishenlab / biscuit
  BISulfite-seq CUI Toolkit
  ☆24Updated last week
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• Xinglab / rMATS-long
  ☆32Updated 9 months ago
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆41Updated last year
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated 2 years ago
• brwnj / fastq-multx
  Demultiplexes a fastq.
  ☆47Updated 4 years ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 3 years ago
• olarerin / metaPlotR
  A Perl/R pipeline for plotting metagenes
  ☆37Updated 3 years ago