labware_gono_amr: Labware Upload Formatter for GONO AMR December 21 2023,...
In phac-nml/wade: Executes molecular typing on contig assemblies
View source: R/LabwareUpload_GONO_AMR.R
labware_gono_amr R Documentation
Labware Upload Formatter for GONO AMR
December 21 2023, Walter Demczuk & Shelley Peterson
#' Run AMR first, then run the 23S allele counts, and then the NGSTAR-MLST analyses
Then run this analysis to combine data from AMR, 23S rRNA and NG-STAR
to prepare full amr profile to upload to LabWare.
Description
Labware Upload Formatter for GONO AMR
December 21 2023, Walter Demczuk & Shelley Peterson
#' Run AMR first, then run the 23S allele counts, and then the NGSTAR-MLST analyses
Then run this analysis to combine data from AMR, 23S rRNA and NG-STAR
to prepare full amr profile to upload to LabWare.
Usage
labware_gono_amr(Org_id, curr_work_dir)
Arguments
Org_id
Organism to query: GAS, PNEUMO or GONO
curr_work_dir
Start up directory from pipeline project to locate system file structure
Value
A table frame containing the results of the query
phac-nml/wade documentation built on March 16, 2024, 8:32 a.m.
R Package Documentation
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Note that we can't provide technical support on individual packages. You should contact the package authors for that.
View source: R/LabwareUpload_GONO_AMR.R
| labware_gono_amr | R Documentation |
Labware Upload Formatter for GONO AMR December 21 2023, Walter Demczuk & Shelley Peterson #' Run AMR first, then run the 23S allele counts, and then the NGSTAR-MLST analyses Then run this analysis to combine data from AMR, 23S rRNA and NG-STAR to prepare full amr profile to upload to LabWare.
Description
Labware Upload Formatter for GONO AMR December 21 2023, Walter Demczuk & Shelley Peterson #' Run AMR first, then run the 23S allele counts, and then the NGSTAR-MLST analyses Then run this analysis to combine data from AMR, 23S rRNA and NG-STAR to prepare full amr profile to upload to LabWare.
Usage
labware_gono_amr(Org_id, curr_work_dir)
Arguments
Org_id |
Organism to query: GAS, PNEUMO or GONO |
curr_work_dir |
Start up directory from pipeline project to locate system file structure |
Value
A table frame containing the results of the query
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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