Pairwise #15
Merged
Pairwise #15
Conversation
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
dimalvovs
reviewed
Aug 6, 2024
R/getInteractingGenes.R
Outdated
| mode=c("residual","DE"),optParams=NULL, | ||
| reconstruction=NULL,hotspots=NULL, | ||
| getInteractingGenes <- function(data, spPatterns, refPattern="Pattern_1", | ||
| mode=c("DE","residuals"), optParams=NULL, |
There was a problem hiding this comment.
important: "residual" or "residuals"?
R/getInteractingGenes.R
Outdated
| } else if (is.matrix(patternPairs)) { | ||
| if (ncol(patternPairs) != 2) | ||
| stop("patternPairs matrix must have 2 columns.") | ||
| } else if(is.character(patternPairs)) |
There was a problem hiding this comment.
note: is this is valid use case? I could not imagine when someone would want to format c('a','b','c','d') as
> matrix(c, ncol=2)
[,1] [,2]
[1,] "a" "c"
[2,] "b" "d"
R/getInteractingGenes.R
Outdated
| patternPairs <- matrix(patternPairs, ncol=2) | ||
| else | ||
| stop("patternPairs must either be a 2-column matrix | ||
| or a list of vectors.") |
| results[[ii]] <- result | ||
| } | ||
| } | ||
| for (ii in seq(1,length(results))) |
There was a problem hiding this comment.
note: maybe seq_len(results)? seq(1,0) yields [1] 1 0
… getPairWiseInteractingGenes
dimalvovs
approved these changes
Aug 12, 2024
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Added functions and code to support pairwise getInteractingGenes call.