Alternatives and similar repositories for references

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

• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆66Updated last week
• nf-core / vscode-extensionpack
  A VSCode extension pack for nf-core developers.
  ☆15Updated 8 months ago
• qbic-pipelines / rnadeseq
  Differential gene expression analysis and pathway analysis of RNAseq data
  ☆32Updated 4 months ago
• nf-core / fastquorum
  Pipeline to produce consensus reads using unique molecular indexes/barcodes (UMIs)
  ☆26Updated last month
• nf-core / tumourevo
  Analysis pipleine to model tumour clonal evolution from WGS data (driver annotation, quality control of copy number calls, subclonal and …
  ☆20Updated this week
• Oshlack / Slinker
  Slinker offers a succinct and complementary method to visualise RNA-Seq data through superTranscripts.
  ☆19Updated 3 years ago
• nf-core / variantbenchmarking
  Pipeline to evaluate and validate the accuracy of variant calling methods in genomic research
  ☆36Updated this week
• brentp / fraguracy
  overlapping bases in read-pairs from a fragment indicate accuracy and reveal error-prone sites
  ☆33Updated 5 months ago
• nf-core / tower-action
  GitHub Action to launch a workflow using Nextflow Tower.
  ☆12Updated 2 years ago
• pachterlab / splitcode
  Flexible and efficient parsing, interpreting and editing of sequencing reads
  ☆44Updated last month
• nextflow-io / nf-hack18
  Nextflow workshop 2018 -- Training pages -> https://nextflow-io.github.io/nf-hack18/
  ☆19Updated 6 years ago
• seqeralabs / nf-training-advanced
  Customer workshop materials
  ☆18Updated 2 years ago
• rhpvorderman / sequali
  Fast sequencing data quality metrics
  ☆31Updated 2 months ago
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆39Updated 2 years ago
• nf-core / seqinspector
  QC pipeline to inspect your sequences
  ☆14Updated this week
• seqeralabs / wave-showcase
  Examples showing how to configure Nextflow to run with Wave containers provisioning service
  ☆21Updated last year
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆41Updated 4 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• s-andrews / BamQC
  Mapped QC analysis program
  ☆44Updated 7 years ago
• nf-core / nascent
  Nascent Transcription Processing Pipeline
  ☆20Updated last month
• Kuanhao-Chao / splam
  ✂️ Deep learning-based splice site predictor that improves spliced alignments
  ☆57Updated 8 months ago
• ulelab / ultraplex
  Ultra-fast 5' and 3' demultiplexer
  ☆28Updated last year
• noamteyssier / bedrs
  bedtools-like functionality for interval sets in rust
  ☆54Updated 3 months ago
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated 2 months ago
• wassermanlab / Variant_catalogue_pipeline
  Variant catalogue pipeline
  ☆26Updated 6 months ago
• TrinityCTAT / CTAT-VirusIntegrationFinder
  ☆17Updated 3 months ago
• telatin / covtobed
  ⛰ covtobed | Convert the coverage track from a BAM file into a BED file
  ☆44Updated 2 weeks ago
• refgenie / refgenie
  Reference genome resource manager
  ☆74Updated last year
• nh13 / snakeparse
  Making Snakemake workflows into full-fledged command line tools since 1999.
  ☆51Updated 7 years ago
• snakemake-workflows / dna-seq-benchmark
  A snakemake workflow for benchmarking variant calling approaches with Genome in a Bottle (GIAB), CHM (syndip) or other custom datasets
  ☆13Updated this week