submit2Phaster: Submits Alignment Hits for Prophage Prediction

In grybnicky/Spacer2PAM: An R Package for Predicting CRISPR System Protospacer Adjacent Motifs from CRISPR Array Spacer Sequences

Submits Alignment Hits for Prophage Prediction

Description

This function allows you to submit the accession numbers of organisms identified by BLAST alignment to Phaster for prophage prediction. This process can take a bit of time to run and depends on the number of sequences being submitted.

Usage

submit2Phaster(joinedData = joineddata, startPosition = 1)

Arguments

joinedData	A dataframe containing the joined spacer and alignment information. Defaults to joineddata, the output of the joinSpacerDFandAlignmentDF function.
startPosition	A value to indicate where in the list of accession numbers to start. Defaults to 1.

Examples

submit2Phaster()

grybnicky/Spacer2PAM documentation built on Jan. 30, 2023, 2:55 a.m.