insertions_and_deletion_lengths_df

A dataframe containing all insertions and deletions
observed in experimental data (pooled across all samples, Greiff, 2017)
This dataframe is a subset of the dataframe used in the application note.
The original dataframe which contains 11363603 rows can be downloaded
from:

datasets

Simulate full B-cell and T-cell receptor repertoires using an in silico
recombination process that includes a wide variety of tunable parameters to introduce noise and biases.
Additional post-simulation modification functions allow the user to implant motifs or codon biases as
well as remodeling sequence similarity architecture. The output repertoires contain records of all
relevant repertoire dimensions and can be analyzed using provided repertoire analysis functions.
Preprint is available at bioRxiv (Weber et al., 2019 <doi:10.1101/759795>).

C<c3><a9>dric R. Weber

immuneSIM

Tunable Simulation of B- And T-Cell Receptor Repertoires

Victor Greiff

insertions_and_deletion_lengths_df function

A data frame with 500000 rows and variables:<dl class="dl-horizontal">
 <dt>n1</dt><dd>np1 insertions</dd>
 <dt>n2</dt><dd>np2 insertions</dd>
 <dt>del_v</dt><dd>lengths of V gene deletions</dd>
 <dt>del_d_5</dt><dd>lengths of 5' end D gene deletions</dd>
 <dt>del_d_3</dt><dd>lengths of 3' end D gene deletions</dd>
 <dt>del_j</dt><dd>lengths of J gene deletions</dd>
</dl>

Format

Dataframe containing insertion sequences and deletion lengths — insertions_and_deletion_lengths_df

A data frame with 500000 rows and variables:<dl class='dl-horizontal'>
 <dt>n1</dt><dd>np1 insertions</dd>
 <dt>n2</dt><dd>np2 insertions</dd>
 <dt>del_v</dt><dd>lengths of V gene deletions</dd>
 <dt>del_d_5</dt><dd>lengths of 5' end D gene deletions</dd>
 <dt>del_d_3</dt><dd>lengths of 3' end D gene deletions</dd>
 <dt>del_j</dt><dd>lengths of J gene deletions</dd>
</dl>

insertions_and_deletion_lengths_df: Dataframe containing insertion sequences and deletion lengths

Description

Usage

Arguments

Format

Details