compare_contig_subsets

Compares contig subset x against contig subset y

Multi-sample algorithm based on contigs and coverage values, to
infer the relative distances of contigs from the replication origin and to
accurately compare bacterial growth rates between samples. Yuan Gao and
Hongzhe Li (2018) <doi:10.1038/s41592-018-0182-0>.

Charlie Bushman

demic

Dynamic Estimator of Microbial Communities

Yuan Gao

compare_contig_subsets function

<dl><dt>est_ptrs_x</dt>
<dd>PTR estimates from contig subset x</dd>
<dt>est_ptrs_y</dt>
<dd>PTR estimates from contig subset y</dd>
<dt>pipeline_x</dt>
<dd>pipeline for contig subset x</dd>
<dt>pipeline_y</dt>
<dd>pipeline for contig subset y</dd>
<dt>cor_cutoff</dt>
<dd>the correlation cutoff</dd>
<dt>max_cor</dt>
<dd>the max correlation</dd></dl>

Arguments

Compares contig subset x against contig subset y — compare_contig_subsets

<dl>

<dt>est_ptrs_x</dt>
<dd>PTR estimates from contig subset x</dd>


<dt>est_ptrs_y</dt>
<dd>PTR estimates from contig subset y</dd>


<dt>pipeline_x</dt>
<dd>pipeline for contig subset x</dd>


<dt>pipeline_y</dt>
<dd>pipeline for contig subset y</dd>


<dt>cor_cutoff</dt>
<dd>the correlation cutoff</dd>


<dt>max_cor</dt>
<dd>the max correlation</dd>

</dl>

compare_contig_subsets: Compares contig subset x against contig subset y

Description

Usage

Value

Arguments