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User: russhh

gravatar for russhh
russhh • 4.6k
Reputation:
4,580
Status:
Trusted
Location:
UK, U. Glasgow
Twitter:
@haematobot
Last seen:
1 day, 15 hours ago
Joined:
5 years, 2 months ago
Email:
r********@hotmail.com

Bioinformatics etc of leukaemia at University of Glasgow
 

Posts by russhh

<prev • 687 results • page 1 of 69 • next >
5
votes
2
answers
125
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2
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Comment: C: Doing differential gene expression without knowing sample classes
... I'd reject the data. ...
written 4 days ago by russhh • 4.6k
0
votes
1
answer
91
views
1
answers
Comment: C: Running mutltiple Fastq files with Hisat2 in a loop
... Is the `echo` supposed to precede the call to hisat2? ...
written 15 days ago by russhh • 4.6k
1
vote
2
answers
113
views
2
answers
Answer: C: Calculating Fold Change from regularized log2- transformed count data, generated
... You'd typically use DESeq2 to calculate to fold-changes. ...
written 15 days ago by russhh • 4.6k
1
vote
1
answer
97
views
1
answers
Comment: C: R: How to save Mart object (BiomaRt package)
... I didn't think "Mart" objects stored the database tables. Aren't they database handles? Presumably you'd have to `getBM` the information you want to store and save that to your "ensembl-data.txt" file ...
written 19 days ago by russhh • 4.6k
0
votes
1
answer
3.2k
views
1
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Comment: C: Parallel processing in R
... Thanks. Suppose I was writing a script / package for which I was uncertain of user's OS beforehand. Is there a wrapper package that can choose which parallelisation tool to call? ...
written 19 days ago by russhh • 4.6k
0
votes
4
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30k
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4
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Comment: C: How To Convert Gencode Gtf Into Bed Format ?
... Had this today. The solution that worked for me was: `cat input.gtf.gz | gunzip - | grep transcript_id | grep gene_id | convert2bed --do-not-sort --input=gtf - > output.bed` ...
written 26 days ago by russhh • 4.6k
1
vote
0
answers
216
views
0
answers
Comment: C: plotting problem with loop in R
... I wrote the equation to work with all pairs of columns in one go. The [i, j] entry of `t(X) %*% X` is equal to `sum(x[, i] * x[, j])` ...
written 4 weeks ago by russhh • 4.6k
0
votes
0
answers
216
views
0
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Comment: C: plotting problem with loop in R
... You could experiment or search: https://www.statmethods.net/advstats/matrix.html ...
written 4 weeks ago by russhh • 4.6k
0
votes
11
answers
44k
views
11
answers
Comment: C: Selecting Random Pairs From Fastq?
... the seed shouldn't influence how many reads are returned; it influences which reads are selected rather than how many are selected (provided you've stated how many reads you want) ...
written 4 weeks ago by russhh • 4.6k
5
votes
4
answers
692
views
4
answers
Comment: C: is fortran still used in bioinformatics?
... did he ask for punch cards? ...
written 4 weeks ago by russhh • 4.6k

Latest awards to russhh

Appreciated 3 days ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Commentator 4 days ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Commentator 18 days ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Appreciated 21 days ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Commentator 4 weeks ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Commentator 6 weeks ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Scholar 9 weeks ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Popular Question 12 weeks ago, created a question with more than 1,000 views. For setting up MArrayLM objects for use in RUnit tests
Appreciated 3 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: fisher test with multiple samples
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For A: R survival analysis
Scholar 8 months ago, created an answer that has been accepted. For C: muTect analysis, error
Good Answer 8 months ago, created an answer that was upvoted at least 5 times. For A: R survival analysis
Popular Question 8 months ago, created a question with more than 1,000 views. For Has the RNA-Seq Atlas website closed?
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Scholar 8 months ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Scholar 9 months ago, created an answer that has been accepted. For C: muTect analysis, error
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Scholar 9 months ago, created an answer that has been accepted. For C: muTect analysis, error
Appreciated 10 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Appreciated 11 months ago, created a post with more than 5 votes. For C: Venn/Euler Diagram Of Four Or More Sets
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