User: Russ

gravatar for Russ
Russ440
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440
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Trusted
Location:
Ontario Veterinary College, University of Guelph, Guelph, Ontario, Canada
Last seen:
3 days ago
Joined:
3 years, 8 months ago
Email:
r*******@uoguelph.ca

Posts by Russ

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Job: Assistant/Associate Professor - Animal Disease Genomics and Bioinformatics, Department of Pathobiology, University of Guelph, Guelph, Canada
... Faculty Positions Position Title / Rank: Assistant/Associate Professor - Animal Disease Genomics and Bioinformatics College: Ontario Veterinary College Department: Pathobiology Date Posted: October 16, 2018 Deadline: December 7, 2018 Please reference AD #18-60 Position Description: The Depart ...
bioinformatics animal job genomics veterinary written 4 months ago by Russ440 • updated 4 months ago by genomax63k
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Answer: A: Plot of 2 replicates
... So this works for me: size_normalized_Counts_by_condition1$condition <- sub("_", "-", size_normalized_Counts_by_condition$condition) size_normalized_Counts_by_condition1$condition <- sub("_", "-", size_normalized_Counts_by_condition1$condition) size_normalized_counts_by_cond ...
written 5 months ago by Russ440
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Comment: C: Plot of 2 replicates
... Oh - sorry, I misunderstood. Check out the `separate` command in tidyr, it's specifically designed to do what you're looking for (split one column into 2). You want to separate the data based on the third underscore in your condition name, correct? My regex isn't good enough to identify the third oc ...
written 5 months ago by Russ440
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Answer: A: Extracting a specific string pattern from a list of objects
... There's probably a nifty regex one liner that will accomplish the task more efficiently, but my strategy is simple and works: vcf1 <- gsub("-TCGA-", "", vcf) vcf2 <- gsub("-[0-9][0-9].vcf", "", vcf1) vcf3 <- gsub("-", "", vcf2) > vcf3 [1] "OV051456" "OV054578" " ...
written 5 months ago by Russ440
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Comment: C: Extracting a specific string pattern from a list of objects
... I also find regex confusing, and often refer to this site to help me: [https://regexr.com/][1] It has good information, cheatsheets, guides, and a live editor in which you can play around with your expressions. [1]: https://regexr.com/ ...
written 5 months ago by Russ440
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Comment: C: Plot of 2 replicates
... I'm not 100% clear on what you're looking for, what you've tried, and what packages you're using. If I assume that you want to create a bar plot using ggplot2, here's what I would do: Separate your "condition" column into two columns (using separate from the tidyr package) into something like c("co ...
written 5 months ago by Russ440
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Comment: C: ggplot2 problem with Date format
... In the code snippet using `as.Date` you refer to the event_date column - how are the dates formatted in this column? is it the same as the "Date" column in the original data you showed us? If so, have a look at the `as.Date` help file: > "A character string. If not specified, it will try "%Y-%m- ...
written 5 months ago by Russ440
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Comment: C: Colouring a string
... Yeah, I agree with jrj.healey, I'd probably just take a screenshot... ...
written 5 months ago by Russ440
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Answer: A: Colouring a string
... Here's a solution using R: library(crayon) string <- "ATTATGCGGGGAATTT" sp <- strsplit(string, split = "")[[1]] df <- data.frame("nucleotide" = as.character(sp), stringsAsFactors = F) redVector <- c(1,3,6,7,8,10) greenVector <- c(2,4,5,12) d ...
written 5 months ago by Russ440
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Answer: A: Geom_Bar: fill bars with a color gradient
... The order of the colouring is decided by the order (or, in R speak, the levels) of your factor variable "external_gene_name". By default, factors are ordered in alphabetical order (as shown in the legend). You need to re-level the factor to reflect that the order is based on "norm_count_1". Check t ...
written 6 months ago by Russ440

Latest awards to Russ

Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: Difference between FC and LogFC
Scholar 5 months ago, created an answer that has been accepted. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Appreciated 5 months ago, created a post with more than 5 votes. For A: Difference between FC and LogFC
Teacher 5 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Appreciated 10 months ago, created a post with more than 5 votes. For A: Difference between FC and LogFC
Scholar 10 months ago, created an answer that has been accepted. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Teacher 10 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Scholar 11 months ago, created an answer that has been accepted. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Popular Question 12 months ago, created a question with more than 1,000 views. For Allelic association tests for polyploid data
Teacher 14 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Scholar 16 months ago, created an answer that has been accepted. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Teacher 16 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Supporter 17 months ago, voted at least 25 times.
Scholar 18 months ago, created an answer that has been accepted. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]
Teacher 18 months ago, created an answer with at least 3 up-votes. For C: StringTie "missing header error" [for both HISAT2 and STAR alignment files]

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