rvalieris / parallel-fastq-dump

Related projects ⓘ

Alternatives and complementary repositories for parallel-fastq-dump

• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆243Updated last year
• snakemake-workflows / rna-seq-star-deseq2
  RNA-seq workflow using STAR and DESeq2
  ☆327Updated 3 months ago
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆273Updated 3 years ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆259Updated last year
• nf-core / atacseq
  ATAC-seq peak-calling and QC analysis pipeline
  ☆188Updated last month
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆200Updated 2 weeks ago
• loosolab / TOBIAS
  Transcription factor Occupancy prediction By Investigation of ATAC-seq Signal
  ☆197Updated 4 months ago
• mhammell-laboratory / TEtranscripts
  A package for including transposable elements in differential enrichment analysis of sequencing datasets.
  ☆228Updated 3 weeks ago
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆198Updated last week
• hbctraining / Intro-to-ChIPseq
  Intro to ChIPseq using HPC
  ☆288Updated last year
• igvteam / igv-reports
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆350Updated 2 months ago
• nservant / HiC-Pro
  HiC-Pro: An optimized and flexible pipeline for Hi-C data processing
  ☆386Updated 7 months ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆134Updated 4 years ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆257Updated last year
• Xinglab / rmats-turbo
  ☆230Updated last month
• ewels / sra-explorer
  Web application to explore the Sequence Read Archive.
  ☆203Updated 6 months ago
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆233Updated last month
• wwood / kingfisher-download
  Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.
  ☆246Updated 4 months ago
• nf-core / chipseq
  ChIP-seq peak-calling, QC and differential analysis pipeline.
  ☆194Updated last month
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆226Updated 2 weeks ago
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆213Updated last week
• rajewsky-lab / mirdeep2
  Discovering known and novel miRNAs from small RNA sequencing data
  ☆140Updated 2 months ago
• TransDecoder / TransDecoder
  TransDecoder source
  ☆276Updated last month
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆253Updated 4 months ago
• CompEpigen / figeno
  Tool for plotting sequencing data along genomic coordinates.
  ☆252Updated this week
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆208Updated 5 months ago
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆529Updated 4 months ago
• rpetit3 / fastq-dl
  Download FASTQ files from SRA or ENA repositories.
  ☆276Updated last month
• yupenghe / methylpy
  WGBS/NOMe-seq Data Processing & Differential Methylation Analysis
  ☆137Updated last year
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆262Updated 5 months ago