User: TriS
TriS • 4.0k
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Posts by TriS
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... see comments above where I addressed this question ...
written 6 months ago by
TriS • 4.0k
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... it's good practice to remove genes that have expression = 0 or very low expression in most samples. the % is up to you, this is an example, and I used 50% ...
written 6 months ago by
TriS • 4.0k
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... that's because you are trying to assign a variable starting with the square bracket, which in R is used to subset variables. I'd suggest to get familiar with R first, instead of copy-paste the code above. that will help you preventing lethal mistakes
...
written 6 months ago by
TriS • 4.0k
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... that will require quite a lil bit of coding, I'd suggest you to refine your question first and then contact a bioinformatician/statistician to help you coding it ...
written 6 months ago by
TriS • 4.0k
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... you have to select patients based on the expression of two genes.
- choose your two genes
- classify patients based on the expression of both (i.e. `tp53 > 2 & pi3k > 2`)
- that will be your altered class
- the rest is not altered.
or you can also count patients that are altered for one an ...
written 6 months ago by
TriS • 4.0k
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... this code is a guideline, not a copy and paste document. I'd suggest you to read a bit more about basic R usage and survival analysis before digging into this. it'll be time well spent ...
written 21 months ago by
TriS • 4.0k
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... you have to group patients using the parameters you chose (i.e. groups) instead of gene expression altered/not altered.
I'd suggest you to read a bit more about basic survival analysis and how it works before digging into this one ...
written 21 months ago by
TriS • 4.0k
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... this might help:
https://www.hindawi.com/journals/abi/2017/1278932/
...
written 23 months ago by
TriS • 4.0k
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Comment:
C: PCA Tools to analyse RNA-seq data
... the linked version is a web-based application. the desktop application is a standalone java-based version ...
written 23 months ago by
TriS • 4.0k
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... as comment to DAVID, it has been updated to the [6.8 version][1] on Oct 2016
[1]: https://david.ncifcrf.gov/ ...
written 23 months ago by
TriS • 4.0k
Latest awards to TriS
Scholar
6 months ago,
created an answer that has been accepted.
For A: How to split gene names in my list?
Scholar
6 months ago,
created an answer that has been accepted.
For C: limma results topTable vs toptable differ
Good Answer
11 months ago,
created an answer that was upvoted at least 5 times.
For A: How to check whether two genomic regions contact in 3D?
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11 months ago,
created a question with more than 5,000 views.
For retrieve full TCGA datasets from cBioportal with R
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12 months ago,
created a question with more than 1,000 views.
For artifact/false peaks visible in wiggle files
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14 months ago,
created a question with more than 1,000 views.
For breakdancer - cfg creation and chi square problem
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14 months ago,
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For A: How to check whether two genomic regions contact in 3D?
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14 months ago,
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For indel position in repetitive regions
Appreciated
15 months ago,
created a post with more than 5 votes.
For A: How to check whether two genomic regions contact in 3D?
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16 months ago,
created a question with more than 1,000 views.
For breakdancer - cfg creation and chi square problem
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17 months ago,
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For breakdancer - cfg creation and chi square problem
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17 months ago,
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For breakdancer - cfg creation and chi square problem
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18 months ago,
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For breakdancer - cfg creation and chi square problem
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22 months ago,
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For filtering pileup file with samtools for SomaticSniper
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2.1 years ago,
created an answer that has been accepted.
For C: limma results topTable vs toptable differ
Teacher
2.1 years ago,
created an answer with at least 3 up-votes.
For A: How to split gene names in my list?
Scholar
2.3 years ago,
created an answer that has been accepted.
For C: limma results topTable vs toptable differ
Teacher
2.3 years ago,
created an answer with at least 3 up-votes.
For A: How to split gene names in my list?
Teacher
2.3 years ago,
created an answer with at least 3 up-votes.
For A: How to split gene names in my list?
Scholar
2.3 years ago,
created an answer that has been accepted.
For C: limma results topTable vs toptable differ
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For pros- and cons- : programming skills vs. GUI
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For pros- and cons- : programming skills vs. GUI
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2.5 years ago,
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For C: limma results topTable vs toptable differ
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