Alternatives and similar repositories for extract-transcript-regions

Users that are interested in extract-transcript-regions are comparing it to the libraries listed below

• zd1 / telseq
  A software for calculating telomere length
  ☆71Updated 6 years ago
• vaquerizaslab / tadtool
  TADtool is an interactive tool for the identification of meaningful parameters in TAD-calling algorithms for Hi-C data.
  ☆48Updated 2 years ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆97Updated last year
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago
• 4ureliek / TEanalysis
  Analysis of TE contribution to features (transcripts or simple features). Includes utils to test enrichment.
  ☆27Updated 6 years ago
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆43Updated last week
• smithlabcode / methpipe
  A pipeline for analyzing DNA methylation data from bisulfite sequencing.
  ☆70Updated 2 years ago
• smithlabcode / ribotricer
  A tool for accurately detecting actively translating ORFs from Ribo-seq data
  ☆39Updated 8 months ago
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated 11 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆63Updated 11 months ago
• hangelwen / miR-PREFeR
  microRNA PREdiction From small RNA-seq data
  ☆29Updated 7 years ago
• AndreasHeger / gat
  Genomic Association Tester
  ☆32Updated 2 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated 2 years ago
• jlab-code / MethylStar
  A fast and robust pre-processing pipeline for bulk or single-cell whole-genome bisulfite sequencing (WGBS) data.
  ☆35Updated 4 years ago
• nf-core / hlatyping
  Precision HLA typing from next-generation sequencing data
  ☆72Updated 2 months ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 3 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 10 years ago
• ENCODE-DCC / long-read-rna-pipeline
  ENCODE long read RNA-seq pipeline
  ☆50Updated 2 years ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 7 months 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 2 weeks ago
• ncbi / BAMscale
  BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …
  ☆72Updated 10 months ago
• nanoporetech / pipeline-pinfish-analysis
  Pipeline for annotating genomes using long read transcriptomics data with pinfish
  ☆28Updated 4 years ago
• Xinglab / lr2rmats
  Long read to rMATS
  ☆32Updated 2 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆49Updated 6 years ago
• drostlab / myTAI
  Evolutionary Transcriptomics with R
  ☆45Updated this week
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆52Updated last year
• bcgsc / HLAminer
  ⛏ HLA predictions from NGS shotgun data
  ☆54Updated 4 months ago