FusionCatcher

Corset — C++ tool for clustering de novo assembled transcripts into gene-level groups and producing gene-level counts for differential expression analysis. Groups contigs from Trinity, Trans-ABySS, or

2 shared topics • 1 shared operation

Loom — HDF5-based file format and Python library (loompy) for storing and accessing large single-cell RNA-seq datasets. Supports sparse/dense matrices, row attributes (genes/features), column attribut

2 shared topics • 1 shared operation

Magic-BLAST — NCBI aligner for mapping large next-generation RNA or DNA sequencing runs against whole genomes or transcriptomes. Optimizes composite paired-read scores with splice-aware alignment, exc

2 shared topics • 1 shared operation

Qualimap — platform-independent quality control tool for next-generation sequencing alignment data. Provides BAM QC (coverage, insert size, GC content, mapping quality), RNA-seq QC (gene body coverage

2 shared topics • 1 shared operation

salmon — Fast, bias-aware transcript quantification from RNA-seq data using selective alignment to the transcriptome. Supports bulk RNA-seq (mapping-based and alignment-based modes), single-cell RNA-s

2 shared topics • 1 shared operation