Man pages for HelenLindsay/AbNames
Standardize Antibody Names
| addID | add ID column |
| annotateAb | Annotate antigens with identifiers |
| dashNotDot | Convert dashes (-) to dots(.) |
| defaultQuery | Default list of functions for making an antibody query table |
| dot-checkSubunitMatches | Check if all subunits of a multi-subunit protein are matched... |
| dot-freducePartial | Create a list of partial functions and apply in sequence |
| dot-getGroups | Return the first n groups of a grouped data.frame |
| dot-printf | Wrapper for sprintf, doesn't convert NA to character |
| dot-printGroupMatch | Select a group from a data.frame, format into a printable... |
| dot-separateSubunits | Separate multi-subunit protein names into one name per row |
| dot-sharedSubstr | Group based on shared substrings |
| dot-stopIfColExists | Warn if a column already exists in a data.frame |
| dot-tempColName | Create a name for a temporary column in a data.frame |
| dot-toString | Wrapper for toString, doesn't convert NA to character and... |
| fillByGroup | Fill NAs in data.frame by grouping |
| filter_by_union | Select rows matching any column present in another data.frame |
| formatIg | Format immunoglobin antibody names |
| formatTCR | Convert T-cell receptor antigen names |
| formatTCRv | Format TCR (vector) |
| gene_aliases | Gene names, symbols and IDs from HGNC, Entrez and Ensembl |
| getAliases | getAliases – |
| getCommonName | Find most common antibody name |
| groupMode | Find the most common value per group |
| gsubAb | Convenience function to remove a pattern from a column in a... |
| lowerNoDash | Convert values to lowercase and replace - with space |
| makeQueryTable | Separate Antibody/Antigen names into component parts |
| matchToCiteseq | Standardise names using the citeseq data set |
| nPerGroup | Group a data.frame and count unique values |
| pipe | Pipe operator |
| print_n | Print a data.frame n rows at a time |
| renameADT-methods | Replace ADT names in an object containing ADT expression |
| replaceGreekSyms | Replace Greek symbols or symbol names |
| searchAliases | Search for matches to antibody names in gene aliases data set |
| searchTotalseq | Annotate antibodies with gene IDs using totalseq data |
| separateSubunits | Separate multi-subunit protein names |
| sharedSubstr | Group based on shared substrings |
| showGroups | Interactively print individual groups of a grouped data.frame |
| splitMerge | Apply a function to a subset of a data.frame |
| splitUnnest | Split a column and create one row per entry |
| totalseq | Antibody and gene information for TotalSeq antibodies from... |
| upperSquish | Convert values to uppercase and remove punctuation |
