dataframe_summary_TI: =========================================================================...

In CyanolabFreiburg/rifi: 'rifi' analyses data from rifampicin time series created by microarray or RNAseq

========================================================================= dataframe_summary_TI

dataframe_summary_TI creates one table with all TI fragments,p_value and the coordinates

Description

The dataframe_summary creates one table with the following columns: event, TI_fragment, TI_factor, TI_fragments_TU, p_value, feature_type, gene, locus_tag, strand, TU, features, event_position, position_1 and position_2.

Usage

dataframe_summary_TI(data, input)

Arguments

data	SummarizedExperiment: the input data frame with correct format.
input	dataframe: dataframe from event_dataframe function.

Value

event:

String, event type, transcription interference.

TI_fragment:

String, the fragment with TI.

TI_termination_factor:

String, the factor of TI fragment.

p_value:

Integer, p_value of the event.

p_adjusted:

Integer, p_value adjusted.

feature_type:

String, region annotation covering the fragments.

gene:

String, gene annotation covering the fragments.

locus_tag:

String, locus_tag annotation covering the fragments.

strand:

Boolean. The bin/probe specific strand (+/-).

TU:

String, The overarching transcription unit.

Features:

Integer, The number of segments within the TI.

event_position:

Integer, the position middle between 2 TI fragments.

position_1:

String, the first position of TI fragment, if 2 fragments, first position is from the first fragment.

position_2:

String, the last position of TI fragment, if 2 fragments, last position is from the second fragment.

WIP

Examples

data(stats_minimal)
data(res_minimal)
dataframe_summary_TI(data = stats_minimal, input = res_minimal)

CyanolabFreiburg/rifi documentation built on May 7, 2023, 7:53 p.m.