clustifyr - Classifier for Single-cell RNA-seq Using Cell Clusters

Package designed to aid in classifying cells from single-cell RNA sequencing data using external reference data (e.g., bulk RNA-seq, scRNA-seq, microarray, gene lists). A variety of correlation based methods and gene list enrichment methods are provided to assist cell type assignment.

Last updated 3 months ago

singlecellannotationsequencingmicroarraygeneexpressionassign-identitiesclustersmarker-genesrna-seqsingle-cell-rna-seq

9.61 score 114 stars 296 scripts 282 downloads

valr - Genome Interval Arithmetic

Read and manipulate genome intervals and signals. Provides functionality similar to command-line tool suites within R, enabling interactive analysis and visualization of genome-scale data. Riemondy et al. (2017) <doi:10.12688/f1000research.11997.1>.

Last updated 11 days ago

bedtoolsgenomeinterval-arithmeticcpp

9.50 score 89 stars 229 scripts 588 downloads

ggtrace - Trace and Highlight Groups of Data Points

Provides 'ggplot2' geoms that allow groups of data points to be outlined or highlighted for emphasis. This is particularly useful when working with dense datasets that are prone to overplotting.

Last updated 1 years ago

ggplot2ggplot2-geomvisualization

6.06 score 15 stars 38 scripts 200 downloads

raer - RNA editing tools in R

Toolkit for identification and statistical testing of RNA editing signals from within R. Provides support for identifying sites from bulk-RNA and single cell RNA-seq datasets, and general methods for extraction of allelic read counts from alignment files. Facilitates annotation and exploratory analysis of editing signals using Bioconductor packages and resources.

Last updated 3 months ago

multiplecomparisonrnaseqsinglecellsequencingcoverageepitranscriptomicsfeatureextractionannotationalignmentbioconductor-packagerna-seq-analysissingle-cell-analysissingle-cell-rna-seqcurlbzip2xz-utilszlib

6.05 score 8 stars 6 scripts 122 downloads

cpp11bigwig - Read bigWig and bigBed Files

Read bigWig and bigBed files using "libBigWig" <https://github.com/dpryan79/libBigWig>. Provides lightweight access to the binary bigWig and bigBed formats developed by the UCSC Genome Browser group.

Last updated 3 days ago

cpp

3.88 score 1 dependents 3 scripts 344 downloads