extract_indel_info: Extract Indel Information from BAM Data Frame
In JakobPedersenLab/dreams: Deep Read-level Error Model for Sequencing data
View source: R/sequence_position_handling_indels.R
extract_indel_info R Documentation
Extract Indel Information from BAM Data Frame
Description
This function processes a data frame containing BAM file information to
extract indel information. It filters rows with insertions or deletions,
calculates indel lengths and types, and generates genomic positions and indel
sequences.
Usage
extract_indel_info(bam_df)
Arguments
bam_df
A data frame containing BAM file information, including columns
for position (pos), CIGAR string (cigar), and sequence (seq).
Value
A modified version of the input data frame bam_df, which includes
additional columns for genomic position (genomic_pos), indel length
(indel_length), indel type (indel_type), and indel sequence
(indel_seq). Each row corresponds to an indel event.
JakobPedersenLab/dreams documentation built on Feb. 2, 2024, 3:14 p.m.
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View source: R/sequence_position_handling_indels.R
| extract_indel_info | R Documentation |
Extract Indel Information from BAM Data Frame
Description
This function processes a data frame containing BAM file information to extract indel information. It filters rows with insertions or deletions, calculates indel lengths and types, and generates genomic positions and indel sequences.
Usage
extract_indel_info(bam_df)
Arguments
bam_df |
A data frame containing BAM file information, including columns
for position ( |
Value
A modified version of the input data frame bam_df, which includes
additional columns for genomic position (genomic_pos), indel length
(indel_length), indel type (indel_type), and indel sequence
(indel_seq). Each row corresponds to an indel event.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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