1. Purpose | 2. {scShardSplitRef} Guided Walkthrough Using a Toy Example | Installation | Prerequisites | Input Files | Workflow | 1. Determine Split Regions | The Help Page for determine_split_regions() | Usage Example: determine_split_regions() | Algorithm Explanation: How determine_split_regions() works | No Overlap with Gene Coordinates | Overlap with Gene Coordinates | 2. Process a GTF file by assigning split-region sequence names | The Help Page for process_gtf() | Usage Example: process_gtf() | 3. Acknowledgements
Package: scShardSplitRef 0.1.0
Irina Kuznetsova
scShardSplitRef: Build Custom Reference Genome for Single-Cell Multiome ATAC and Gene Expression Data of Large-Genome Species
Provides utilities that enable researchers to build custom references for the Multiome ATAC Gene Expression sequencing data for large-genome species without manual intervention.
Authors:
scShardSplitRef_0.1.0.tar.gz
scShardSplitRef_0.1.0.zip(r-4.7-any)
scShardSplitRef_0.1.0.tar.gz(r-4.7-any)scShardSplitRef_0.1.0.tar.gz(r-4.6-any)
scShardSplitRef_0.1.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
scShardSplitRef/json (API)
| # Install 'scShardSplitRef' in R: |
| install.packages('scShardSplitRef', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated from:be722f450c. Checks:5 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 126 | ||
| source / vignettes | OK | 195 | ||
| linux-release-x86_64 | OK | 123 | ||
| windows-devel-x86_64 | OK | 82 | ||
| wasm-release | OK | 142 |
Exports:determine_split_regionsprocess_gtfscShardSplitRef_options
scShardSplitRef: Algorithm Description
Last update: 2026-07-23
Started: 2026-07-23
scShardSplitRef: Getting Started
Package Overview | Guided Walk-Through | Installation | Prerequisites | Input Files | Step-by-Step Guide | Step-1 | The Help Page for the determine_split_regions() Function | Check formatting of input files and build BED-like split intervals | Step-2 | The Help Page for the process_gtf() Function | Generate Gene Annotation (GTF) File in Compatible to Cell Ranger ARC Format | Step-3 | Step-4 | Prepare config File | Run Cell Ranger ARC | Citation | License | Contributing | Acknowledgements
Last update: 2026-07-23
Started: 2026-07-23
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Determine split regions for reference sharding | determine_split_regions |
| Process a GTF file by assigning split-region sequence names | process_gtf |
| Get or Set scShardSplitRef Options | scShardSplitRef_options |
