## User: moldach

moldach20
Reputation:
20
Status:
New User
Location:
Website:
https://www.moldach.gi...
@MattOldach
Last seen:
1 week, 5 days ago
Joined:
4 years, 3 months ago
Email:
m******@ucalgary.ca

#### Posts by moldach

<prev • 22 results • page 1 of 3 • next >
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... Hi Martin, I didn't realize Seurat wasn't under the Bioconductor umbrella and apologize for not including a reprex - I've done so now. Thank you very much for providing a very helpful answer anyways!  library(dplyr) library(Seurat) library(tibble) # Download ~11Mb file - subset from SRA653 ...
written 5 weeks ago by moldach20
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... I'm running into issues trying to catch errors thrown from Seurat::RunTSNE() inside of a function. When users input a small dataset we've noticed that this function will fail with the error: > Error in .check_tsne_params(nrow(X), dims = dims, perplexity = perplexity, : perplexity is too la ...
written 5 weeks ago by moldach20 • updated 5 weeks ago by Martin Morgan ♦♦ 24k
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... When I install the scater package it's not bringing in the plotQC() function. I get this error:  library(scater) scater::plotQC()  > could not find function "plotQC" This is my sessionInfo():  R version 3.6.1 (2019-07-05) Platform: x86_64-w64-mingw32/x64 (64-bit) Running under: ...
written 7 weeks ago by moldach20 • updated 7 weeks ago by Aaron Lun25k
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... We've ran into a problem where ChAMP::champ.norm() has all of a sudden stopped working for our users. We've ran it again on datasets which have worked previously (on both dfs and matrices) and were getting the same error:  test_betas <- data.frame(slide1 = c(0.83930246, 0.81656241, 0.885922 ...
written 7 months ago by moldach20 • updated 7 months ago by Yuan Tian120
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... I've noticed there is a bug when tying to run one sample on ENmix::bmiq.mc() and wanted to make a pull request. As this project lives on Bioconductor and not Github not sure the best way to do this (your repo says to fill bug reports here). > Error in 1:ncol(beta.b1) : argument of length 0 Ad ...
written 9 months ago by moldach20
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... I'm getting a rather cryptic error from the ENmix package's bmiq.mc()` function: > Error in ENmix::bmiq.mc(forDNAm_preprocess2, nCores = 2) : BMIQ estimates encountered error, try to run it again I've narrowed the problem down over the past couple of weeks and getting closer to the issu ...
written 10 months ago by moldach20
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... I'm having trouble with the minfi package, specifically the read.metharray.sheet function. The missmethyl package vignette loads the sample sheet from minfiData package like so: library(minfi) library(minfiData) baseDir <- system.file("extdata", package = "minfiData") targets <- read.methar ...
written 15 months ago by moldach20 • updated 15 months ago by James W. MacDonald52k
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... I'm also trying to make sense of the plot2D I get with my data. >f <- "https://gist.githubusercontent.com/moldach/446852fcfa1adbb3be2ac754dc616421/raw/42f31e88f38afb7243d61dc46e2321e3ebfdae18/pRoloc-data" >e <- readMSnSet2(f, ecol = 2:20, sep = "\t") >hsap <- pRolocmarkers("hsap" ...
written 22 months ago by moldach20
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... I used clusterProfiler to give Uniprot identifiers to my HGNC gene symbols. # Working back from the data I provided just to show the original genes I had - there were only 6538 unique genes f <- read.csv("https://gist.githubusercontent.com/moldach/446852fcfa1adbb3be2ac754dc616421/raw/42f31e88f ...
written 22 months ago by moldach20
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