GetGRangesFromEnsDb

Pulls the transcript information for all chromosomes from an EnsDb object.
This wraps <code>crunch</code> and applies the extractor
function to all chromosomes present in the EnsDb object.

A framework for the analysis and exploration of single-cell chromatin data.
The 'Signac' package contains functions for quantifying single-cell chromatin data,
computing per-cell quality control metrics, dimension reduction
and normalization, visualization, and DNA sequence motif analysis.
Reference: Stuart et al. (2021) <doi:10.1038/s41592-021-01282-5>.

Tim Stuart

Signac

Analysis of Single-Cell Chromatin Data

Avi Srivastava

Paul Hoffman

Rahul Satija

GetGRangesFromEnsDb function

<dl><dt>ensdb</dt>
<dd>An EnsDb object</dd>
<dt>standard.chromosomes</dt>
<dd>Keep only standard chromosomes</dd>
<dt>biotypes</dt>
<dd>Biotypes to keep</dd>
<dt>verbose</dt>
<dd>Display messages</dd></dl>

Arguments

Extract genomic ranges from EnsDb object — GetGRangesFromEnsDb

<dl>

<dt>ensdb</dt>
<dd>An EnsDb object</dd>


<dt>standard.chromosomes</dt>
<dd>Keep only standard chromosomes</dd>


<dt>biotypes</dt>
<dd>Biotypes to keep</dd>


<dt>verbose</dt>
<dd>Display messages</dd>

</dl>

GetGRangesFromEnsDb: Extract genomic ranges from EnsDb object

Description

Usage

Arguments