User: m.fletcher
m.fletcher • 20
- Reputation:
- 20
- Status:
- New User
- Location:
- Germany
- Last seen:
- 12 months ago
- Joined:
- 4 years, 6 months ago
- Email:
- m*********@dkfz-heidelberg.de
Posts by m.fletcher
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... Hello all,
I was trying to figure out if I could re-analyse the data from this single-cell RNAseq paper: http://science.sciencemag.org/content/344/6190/1396
Ideally, what I would like to do is calculate some pseudotime trajectories using the deposited expression matrix (ftp://ftp.ncbi.nlm.nih.gov/ ...
written 12 months ago by
m.fletcher • 20
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... Ah, yes, the `strata` option looks like it could possibly do the job - although from my reading of the manpage, it looks like that the permutations still occur within each specified stratum; whereas I want to permute the data within only one of those strata.
Thank you for the suggestion, I will try ...
written 2.8 years ago by
m.fletcher • 20
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... Hello all,
I'm using R to investigate gene co-expression modules in a dataset and I would like to generate some 'noise' in the matrix, and then re-computing the co-expression modules using this noisy matrix. This would give me an idea of the robustness of the modules.
(In this case we have rows = ...
written 2.9 years ago by
m.fletcher • 20
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... Thanks, I will definitely try that approach out also!
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written 4.5 years ago by
m.fletcher • 20
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... Is multiinter strand-aware? The output doesn't give any clues whether it is!
...
written 4.5 years ago by
m.fletcher • 20
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... Gidday,
I've been running de novo transcriptome assembly on a large set of RNA-seq data (n=48 samples).
I'd like to combine the per-sample assemblies into a meta-assembly (representing potential novel transcripts present in the entire sample set) that I can use for downstream analyses.
Due to the ...
written 4.5 years ago by
m.fletcher • 20
• updated
3.8 years ago by
Biogeek • 380
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For Filtering de novo transcriptomes - finding transcripts present in N samples
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