User: russhh
russhh • 3.8k
- Reputation:
- 3,800
- Status:
- Trusted
- Location:
- UK, U. Glasgow
- Twitter:
- @haematobot
- Last seen:
- 4 hours ago
- Joined:
- 4 years, 4 months ago
- Email:
- r********@hotmail.com
Bioinformatics etc of leukaemia at University of Glasgow
Posts by russhh
<prev
• 573 results •
page 1 of 58 •
next >
5
votes
1
answer
133
views
1
answers
... set `chromosome_name` to `X` not `chrX` in your `getBM` ...
written 16 days ago by
russhh • 3.8k
0
votes
1
answer
243
views
1
answers
... Did you mean 'not ideal'? ...
written 16 days ago by
russhh • 3.8k
1
vote
3
answers
103
views
3
answers
... Good stuff - I was guessing ...
written 18 days ago by
russhh • 3.8k
2
votes
3
answers
103
views
3
answers
... Your code:
ggplot(
de_results_midline_highest_lowest [1:20,],
aes(x = reorder (external_gene_name, norm_count_1), y = norm_count_1, fill= external_gene_name)) +
geom_bar(position="dodge", stat="identity") +
xlab("Gene") +
ylab("Normalized Counts") +
coord_flip()+ ...
written 18 days ago by
russhh • 3.8k
1
vote
0
answers
148
views
0
answers
Comment:
C: Adding data to R S4 object
... But then, you are doing exactly the same thing you've just been doing. The error is inside the source code for the `construct` function. You can get around it if you pass in a `samplevector` in addition to your `exprmatrix`. Try downloading the github repo for `sincera`, modify the line of code i to ...
written 5 weeks ago by
russhh • 3.8k
2
votes
0
answers
148
views
0
answers
Comment:
C: Adding data to R S4 object
... Looking at the source code for sincera it looks like you've found a bug (see line 99 of https://github.com/xu-lab/SINCERA/blob/master/R/sincera.R ). Post as issue via github and make a pull request: you just need to change `rexpr` to `rexprs`. Sincera is throwing the error because it can't find `rex ...
written 5 weeks ago by
russhh • 3.8k
1
vote
0
answers
148
views
0
answers
Comment:
C: Adding data to R S4 object
... in the code you've posted, you aren't replacing the values that are currently stored in `sc`; you are constructing a brand-new object and storing that in `sc`. It may be possible to hack it so that you can update the `rexpr` entry of the pre-existing `sc` using `sc@rexpr <- ipf.exprmatrix`. (I' ...
written 5 weeks ago by
russhh • 3.8k
0
votes
1
answer
153
views
1
answers
... but does that mean the patient was treated during follow-up, or does it mean the patient was treated prior to resection? ...
written 5 weeks ago by
russhh • 3.8k
0
votes
1
answer
153
views
1
answers
... To be honest, it doesn't look like the samples (strictly the patients they were derived from) were treated prior to resection, but I can't find any explicit statement. It is very unlikely the patients weren't treated after the surgery had been performed. ...
written 5 weeks ago by
russhh • 3.8k
0
votes
1
answer
232
views
1
answers
... your FDR was calculated based on random sampling; the reason you have zeros is because in none of the randomly-sampled runs was the sampled statistic greater than the observed value. You'd need 10000s of samples to get values greater than zero for your most-significant hits
Do you know why your t-s ...
written 6 weeks ago by
russhh • 3.8k
Latest awards to russhh
Appreciated
12 days ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Teacher
16 days ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Teacher
19 days ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Appreciated
6 weeks ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Appreciated
4 months ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Teacher
4 months ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Commentator
5 months ago,
created a comment with at least 3 up-votes.
For C: fisher test with multiple samples
Commentator
5 months ago,
created a comment with at least 3 up-votes.
For C: fisher test with multiple samples
Teacher
6 months ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Popular Question
7 months ago,
created a question with more than 1,000 views.
For Has the RNA-Seq Atlas website closed?
Popular Question
9 months ago,
created a question with more than 1,000 views.
For VariantAnnotation parallel usage
Good Answer
9 months ago,
created an answer that was upvoted at least 5 times.
For A: R survival analysis
Appreciated
9 months ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Commentator
9 months ago,
created a comment with at least 3 up-votes.
For C: fisher test with multiple samples
Appreciated
11 months ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Good Answer
12 months ago,
created an answer that was upvoted at least 5 times.
For A: R survival analysis
Teacher
13 months ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Teacher
13 months ago,
created an answer with at least 3 up-votes.
For A: Unexpected outcome: Gene Enrichment using Fisher's Test
Appreciated
14 months ago,
created a post with more than 5 votes.
For C: Venn/Euler Diagram Of Four Or More Sets
Use of this site constitutes acceptance of our User
Agreement
and Privacy
Policy.
Powered by Biostar
version 2.3.0
Traffic: 709 users visited in the last hour