Alternatives and similar repositories for MetaSRA-pipeline:

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

• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• KnowEnG / SequencEnG
  An interactive learning resource for next-generation sequencing (NGS) techniques
  ☆28Updated 6 years ago
• hms-dbmi / spp
  SPP - R package for analysis of ChIP-seq and other functional sequencing data
  ☆40Updated 3 years ago
• sk-sahu / sig-bio-shiny
  A standalone interactive application for detecting biological significance on a set of genes
  ☆40Updated 3 years ago
• PhanstielLab / Sushi
  Tools for visualizing genomics data
  ☆67Updated 3 years ago
• stevetsa / awesome-microbes
  List of computational resources for analyzing microbial sequencing data.
  ☆66Updated last year
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 3 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated 2 years ago
• brianyiktaktsui / Skymap
  High-throughput gene to knowledge mapping through massive integration of public sequencing data.
  ☆31Updated 5 years ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 3 years ago
• slowkow / picardmetrics
  Run Picard on BAM files and collate 90 metrics into one file.
  ☆39Updated 7 years ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• stevekm / Bioinformatics
  Bioinformatics analysis scripts, workflows, general code examples
  ☆53Updated 4 years ago
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆43Updated 2 years ago
• nellore / intropolis
  Exon-exon splice junctions across SRA
  ☆39Updated 3 years ago
• pachterlab / scRNA-Seq-TCC-prep
  Preprocessing of single-cell RNA-Seq (deprecated)
  ☆62Updated 5 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 6 years ago
• mahmoudibrahim / JAMM
  JAMM Peak Finder for Sequencing Datasets
  ☆28Updated 4 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆49Updated this week
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 6 years ago
• thelovelab / tximeta
  Transcript quantification import with automatic metadata detection
  ☆67Updated 3 weeks ago
• brentp / combined-pvalues
  combining p-values using modified stouffer-liptak for spatially correlated results (probes)
  ☆44Updated 2 years ago
• stjude / CICERO
  CICERO: a versatile method for detecting complex and diverse driver fusions using cancer RNA sequencing data.
  ☆36Updated last month
• AstraZeneca / detectIS
  A pipeline to rapidly detect exogenous DNA integration sites using DNA or RNA paired-end sequencing data
  ☆12Updated last year
• mozack / vdjer
  V'DJer - B Cell Receptor Repertoire Reconstruction from short read mRNA-Seq data
  ☆29Updated 2 years ago
• Danko-Lab / tutorials
  Tutorials covering various topics in genomic data analysis.
  ☆16Updated 6 years ago
• nf-core / airrflow
  B-cell and T-cell Adaptive Immune Receptor Repertoire (AIRR) sequencing analysis pipeline using the Immcantation framework
  ☆59Updated 3 weeks ago
• UMMS-Biocore / debrowser
  Differential Count Data Analysis Toolbox
  ☆61Updated last year
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆40Updated 4 years ago