Alternatives and similar repositories for rnaseq

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

• roryk / bcbio.rnaseq
  Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …
  ☆24Updated 8 years ago
• nellore / runs
  Scripts for reproducing analyses of large RNA-seq datasets
  ☆15Updated 6 years ago
• databio / bedshift
  Bedfile perturbation tool
  ☆17Updated 4 months ago
• ma-compbio / Weaver
  Allele-Specific Quantification of Structural Variations in Cancer Genomes
  ☆18Updated 6 years ago
• genomic-medicine-sweden / tomte
  A nextflow pipeline for analysing expression and splicing in RNA seq data from rare disease patient
  ☆18Updated 2 months ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated 2 weeks ago
• berilerdogdu / SPIT
  DTU analysis tool inspired by llamas
  ☆12Updated 4 months ago
• BIMSBbioinfo / pigx_rnaseq
  Bulk RNA-seq Data Processing, Quality Control, and Downstream Analysis Pipeline
  ☆21Updated last week
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 7 years ago
• seandavi / MachineLearningIntro
  Machine learning use cases for teaching
  ☆13Updated 8 years ago
• DCGenomics / DangerTrack
  ☆13Updated 8 years ago
• raphael-group / NAIBR
  Novel Adjacency Identification with Barcoded Reads
  ☆13Updated 3 years ago
• VCCRI / dv-trio
  dv-trio provides a pipeline to call variants for a trio (father-mother-child) using DeepVariants [1]. Genomic Variant Calling Files (gVCF…
  ☆11Updated 5 years ago
• pfh / topconfects
  TOP results by CONfident efFECT Sizes.
  ☆15Updated last year
• flo-compbio / genometools
  GenomeTools: Scripts and Classes for Working with Genomic Data
  ☆12Updated 7 years ago
• smped / ngsReports
  ☆23Updated 3 months ago
• multimeric / TidyMultiqc
  Converts 'MultiQC' Reports into Tidy Data Frames
  ☆19Updated last year
• mikelove / alpine
  Modeling and correcting fragment sequence bias for RNA-seq
  ☆24Updated last year
• imbforge / NGSpipe2go
  a set of NGS pipelines
  ☆24Updated this week
• itsvenu / ALPS
  AnaLysis routines for ePigenomicS data - 🏫 Bioconductor project
  ☆16Updated 2 years ago
• Baldridge37 / RNAseq_with_Hisat2_stringtie
  RNAseq analysis with Hisat2, stringtie, and ballgown
  ☆17Updated 6 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 6 years ago
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• MorrellLAB / sequence_handling
  A series of scripts to automate sequence workflows
  ☆19Updated 2 weeks ago
• hakyimlab / phenomexcan
  PhenomeXcan: mapping the genome to the phenome through the transcriptome
  ☆11Updated 5 years ago
• InscriptaLabs / BioCantor
  ☆22Updated 2 years ago
• sigven / pharmOncoX
  Targeted and non-targeted anticancer drugs and drug regimens
  ☆30Updated 3 weeks ago
• Zilong-Li / vcfpp
  a C++ API of htslib to be easily integrated and safely used. More importantly, it can be callled seamlessly in R/Python/Julia etc.
  ☆24Updated 6 months ago
• jfoox / abrfngs2
  Analysis and figure generation code for the ABRF NGS Phase II Study on DNA-seq reproducibility
  ☆18Updated 4 years ago
• quinlan-lab / ccr
  Building the constrained coding regions (CCR) model
  ☆16Updated 7 years ago