tiangzlab

Load when generating spliced / unspliced layers from Cell Ranger BAM, FASTQ, STARsolo output,

Load when summarising structural variants from an SV VCF (DEL / DUP / INV / TRA) — INFO/SVTYPE-based

tiangzlab/omicsclaw

tiangzlab/omicsclaw

Load when correcting batch effects in bulk expression using R sva ComBat or the legacy Python parametric approximation. Skip singl...

Load when discovering bulk gene co-expression modules and hub genes with R WGCNA. Skip direct expression contrasts (use bulkrna-de...

tiangzlab/omicsclaw

Load when comparing gene expression between two conditions in bulk RNA-seq count data. Skip

Load when estimating cell-type proportions in bulk RNA-seq samples from a single-cell or

Load when running pathway / GO term enrichment on a bulk RNA-seq DE result list. Skip when

tiangzlab/omicsclaw

Load when querying STRING for the protein-protein interaction neighborhood of a bulk

tiangzlab/omicsclaw

Load when summarising STAR / HISAT2 / Salmon alignment-rate logs in bulk RNA-seq. Skip when

Load when checking raw FASTQ quality (Phred / GC / adapter / Q20-Q30) before alignment in

Load when summarising rMATS / SUPPA2 alternative-splicing output and identifying significant

Load when comparing bulk expression strata against clinical time-to-event data with Kaplan-Meier and log-rank tests. R survival al...

Load when placing bulk RNA-seq samples on a single-cell reference's pseudotime axis (NNLS

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw

tiangzlab/omicsclaw