ThresholdDataTable: Utility for retrieving species sequences givin a missing data...
In carolinafishes/toast: Transcriptome Ortholog Alignment Sequence Tools
View source: R/ThresholdDataTable.R
ThresholdDataTable R Documentation
Utility for retrieving species sequences givin a missing data threshold
Description
User defines a threshold and is returned a dataframe containing
only the samples/species with at least that many sequences.
This dataframe can be fed into ExtractBuscoSeqs() as the busco_table
parameter
Usage
ThresholdDataTable(missing_df, threshold)
Arguments
missing_df
Directory where fasta alignments can be found
threshold
Minimum number of sequences a sample/species must contain
Value
Reads through the full table found in folders ./busco_results/run_Busco* and
returns a dataframe of the results
Author(s)
Dustin J Wcisel, djwcisel@ncsu.edu
James Thomas Howard, jthowar3@ncsu.edu
Jeffrey A Yoder, jayoder@ncsu.edu
Alex Dornburg, dornburgalex@gmail.com
Examples
threshold_df <- ThresholdDataTable(missing_df = mdf, threshold = 50)
carolinafishes/toast documentation built on Dec. 19, 2024, 12:47 a.m.
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View source: R/ThresholdDataTable.R
| ThresholdDataTable | R Documentation |
Utility for retrieving species sequences givin a missing data threshold
Description
User defines a threshold and is returned a dataframe containing only the samples/species with at least that many sequences. This dataframe can be fed into ExtractBuscoSeqs() as the busco_table parameter
Usage
ThresholdDataTable(missing_df, threshold)
Arguments
missing_df |
Directory where fasta alignments can be found |
threshold |
Minimum number of sequences a sample/species must contain |
Value
Reads through the full table found in folders ./busco_results/run_Busco* and returns a dataframe of the results
Author(s)
Dustin J Wcisel, djwcisel@ncsu.edu
James Thomas Howard, jthowar3@ncsu.edu
Jeffrey A Yoder, jayoder@ncsu.edu
Alex Dornburg, dornburgalex@gmail.com
Examples
threshold_df <- ThresholdDataTable(missing_df = mdf, threshold = 50)
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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