filter_taxon: Filter lines from a kraken report result based on the...
In fbreitwieser/pavian: Visualize and analyze metagenomics classification results
View source: R/datainput-read_report.R
filter_taxon R Documentation
Filter lines from a kraken report result based on the taxonomy name
Description
It updates the read_stay counts, and removes any children below the
entry, and any parent entries that have no "cladeReads" that stay
Usage
filter_taxon(report, filter_taxon, rm_clade = TRUE, do_message = FALSE)
Arguments
report
Report data.frame.
filter_taxon
Name of entry to remove.
rm_clade
If TRUE, remove all cladeReads at and below clade, otherwise just set the number of cladeReads that stay at taxon to zero.
do_message
If TRUE, report how many rows and cladeReads were deleted.
Value
filtered report
fbreitwieser/pavian documentation built on Jan. 5, 2024, 1:43 a.m.
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View source: R/datainput-read_report.R
| filter_taxon | R Documentation |
Filter lines from a kraken report result based on the taxonomy name
Description
It updates the read_stay counts, and removes any children below the entry, and any parent entries that have no "cladeReads" that stay
Usage
filter_taxon(report, filter_taxon, rm_clade = TRUE, do_message = FALSE)
Arguments
report |
Report |
filter_taxon |
Name of entry to remove. |
rm_clade |
If |
do_message |
If |
Value
filtered report
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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