mapDamage2

miRDeep2 — de novo microRNA (miRNA) discovery and quantification from small RNA-seq data. Identifies known and novel miRNAs by mapping collapsed reads to the genome, scoring hairpin structures, and co

2 shared topics • 2 shared operations

bamutil — C++ toolkit for reading, writing, and manipulating BAM alignment files. Provides duplicate marking (dedup), base quality score recalibration (recab), overlapping read clipping (clipOverlap),

2 shared topics • 1 shared operation

GREML (GCTA) — genome-based restricted maximum likelihood analysis for SNP heritability estimation, genetic correlation, mixed linear model association (MLMA), and COJO conditional analysis. Use when

2 shared topics • 1 shared operation

IsoformSwitchAnalyzeR — R/Bioconductor package for detecting, annotating, and visualizing isoform switches with functional consequences from RNA-seq data. Integrates with Salmon, kallisto, StringTie,

2 shared topics • 1 shared operation

ScreenProcessing — Python pipeline for analyzing pooled genetic screens (CRISPRi/CRISPRa). Converts raw FASTQ sequencing files into library counts using fastqgz_to_counts.py, then generates sgRNA phen

2 shared topics • 1 shared operation