get_foreground_df_to_motifs: Get filtered foreground data frame that its aligned sequences...

In ecnuzdd/PhosMap: A Comprehensive R Package For Analyzing Quantitative Phosphoproteomics Data

Get filtered foreground data frame that its aligned sequences with specific motif.

Description

Get filtered foreground data frame that its aligned sequences with specific motif.

Usage

get_foreground_df_to_motifs(
  foreground_sequences_mapped_to_motifs,
  foreground,
  foreground_df
)

Arguments

foreground_sequences_mapped_to_motifs	A list that consists of motifs and its corresponding aligned sequences.
foreground	A vector for aligned sequences.
foreground_df	A data frame from the initial foreground data frame.

Value

A data frame that its aligned sequences with specific motif.

Author(s)

Dongdong Zhan and Mengsha Tong

Examples

## The process needs to load data from PhosMap datasets stored into FTP server and perform large computation.
## It may take a few minutes.
if(FALSE){
    ftp_url <- "ftp://111.198.139.72:4000/pub/PhosMap_datasets/function_demo_data/get_foreground_df_to_motifs.RData"
    load_data <- load_data_with_ftp(ftp_url, 'RData')
    writeBin(load_data, "get_foreground_df_to_motifs.RData")
    load("get_foreground_df_to_motifs.RData")

    foreground_df_mapped_to_motifs <- get_foreground_df_to_motifs(
      foreground_sequences_mapped_to_motifs,
      foreground, foreground_df
    )
   head(foreground_df_mapped_to_motifs)
}

ecnuzdd/PhosMap documentation built on Dec. 7, 2022, 4:09 a.m.