Stars
Single-cell RNA-Seq pipeline for barcode-based protocols such as 10x, DropSeq or SmartSeq, offering a variety of aligners and empty-droplet detection
Call and score variants from WGS/WES of rare disease patients.
RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
RNA-seq analysis pipeline for detection of gene-fusions
Nanopore demultiplexing, QC and alignment pipeline
Precision HLA typing from next-generation sequencing data
ChIP-seq peak-calling, QC and differential analysis pipeline.
Converts bam or cram files to fastq format and does quality control.
ATAC-seq peak-calling and QC analysis pipeline
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
Conda recipes for the bioconda channel.
Aggregate results from bioinformatics analyses across many samples into a single report.
Guess which adapter was used in an NGS sequencing run