DEXSeq

Use when working with Gviz, the Bioconductor R package for plotting genomic coordinates, annotations, signal tracks, read alignments, and sequence context in genome-browser-style figures. Covers core

1 shared topic • 2 shared operations

MAJIQ — Modeling Alternative Junction Inclusion Quantification for detecting, quantifying, and visualizing local splicing variations (LSVs) from RNA-Seq data. Builds splice graphs from BAM files and G

1 shared topic • 2 shared operations

ngs.plot — fast R-based visualization tool for next-generation sequencing data enrichment at functional genomic regions. Generates average profiles and heatmaps from BAM files over TSS, TES, gene bodi

1 shared topic • 2 shared operations

Use when integrating R and Python with reticulate: importing Python modules from R, declaring Python dependencies with py_require(), selecting Python environments (use_python/use_virtualenv/use_condae

1 shared topic • 2 shared operations

scJoint integrates atlas-scale single-cell RNA-seq and scATAC-seq data using transfer learning. Transfers cell type labels from annotated RNA datasets to unannotated ATAC datasets via joint neural net

1 shared topic • 2 shared operations