sampleGenomePileup

A pileup file generated during read mapping to the *Salmonella enterica* LT2 genome.
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Automate the detection of gaps and elevations in mapped sequencing
read coverage using a 2D pattern-matching algorithm. 'ProActive' detects, characterizes
and visualizes read coverage patterns in both genomes and metagenomes. Optionally,
users may provide gene annotations associated with their genome or metagenome
in the form of a .gff file. In this case, 'ProActive' will generate an additional
output table containing the gene annotations found within the detected regions of gapped
and elevated read coverage. Additionally, users can search for gene
annotations of interest in the output read coverage plots.

Jessie Maier

ProActive

Detect Elevations and Gaps in Mapped Sequencing Read Coverage

Manuel Kleiner

sampleGenomePileup function

## `sampleGenomePileup`
A data frame with 48,575 rows and 4 columns:<dl>
 <dt>V1</dt>
<dd>Accession</dd> <dt>V2</dt>
<dd>Mapped read coverage averaged over a 100 bp window size</dd> <dt>V3</dt>
<dd>Starting position (bp) of each 100 bp window. Starts from 100.</dd> <dt>V4</dt>
<dd>Starting position (bp) of each 100 bp window. Starts from 0.</dd>
</dl>

Format

sampleGenomePileup — sampleGenomePileup

## `sampleGenomePileup`
A data frame with 48,575 rows and 4 columns:<dl>
 <dt>V1</dt>
<dd>Accession</dd>

 <dt>V2</dt>
<dd>Mapped read coverage averaged over a 100 bp window size</dd>

 <dt>V3</dt>
<dd>Starting position (bp) of each 100 bp window. Starts from 100.</dd>

 <dt>V4</dt>
<dd>Starting position (bp) of each 100 bp window. Starts from 0.</dd>


</dl>

sampleGenomePileup: sampleGenomePileup

Description

Usage

Arguments

Format

Details