User: Francesc Castro

Reputation:
20
Status:
New User
Location:
Switzerland
Last seen:
2 months, 2 weeks ago
Joined:
4 years, 8 months ago
Email:
f***********@gmail.com

Posts by Francesc Castro

<prev • 7 results • page 1 of 1 • next >
0
votes
2
answers
1.0k
views
2
answers
Answer: A: SomaticSignatures low mutation rates
... Thanks for the answer. Do you have a general estimation of the minimum number of mutations to have an reliable estimation of the signatures? I suppose that this number would be in function of the strength of the signature ...
written 4.7 years ago by Francesc Castro20
2
votes
2
answers
1.0k
views
2
answers
SomaticSignatures low mutation rates
... Hi, I have a dataset of somatic mutations in multiple samples. Some samples have a really low mutation rates (~20 mutations) while others have more mutation burden (~2000 mutations). I understand that signatures estimation for low-mutation samples will be unreliable, but the inclusion of these samp ...
somaticsignatures written 4.7 years ago by Francesc Castro20
0
votes
2
answers
832
views
2
answers
Comment: C: SomaticSignatures nmfSignatures error
... Ok, I'll do it ...
written 4.7 years ago by Francesc Castro20
0
votes
2
answers
832
views
2
answers
Comment: C: SomaticSignatures nmfSignatures error
... I already expected that the estimated signatures for the low mutation samples would not be reliable, but do you think that the inclusion of these low-mutation samples would affect also to the definition of the different signatures?   ...
written 4.7 years ago by Francesc Castro20
0
votes
2
answers
832
views
2
answers
Comment: C: SomaticSignatures nmfSignatures error
... I have really low numbers for some of the samples. Below the link to the rda file containing both matrices, normalized and not normalized (vr_mm_trio_f) https://www.dropbox.com/s/n7fyyxljv2tbftq/motif_matrix.rda?dl=0 Thanks ...
written 4.7 years ago by Francesc Castro20
0
votes
2
answers
832
views
2
answers
Answer: A: SomaticSignatures nmfSignatures error
... You're right, problem solved. Sorry for the confusion with the previous version. You still want a have the motifMatrix with normalize = FALSE? Thanks a lot ...
written 4.7 years ago by Francesc Castro20
1
vote
2
answers
832
views
2
answers
SomaticSignatures nmfSignatures error
... Hi, I'm trying to run nmfSignatures function and I've got the following error > sigs_trio_nmf <- nmfSignatures(vr_mm_trio, n_sigs, nmfSignatures) Error in 1:r : NA/NaN argument Timing stopped at: 0.603 0.001 0.603 I suppose that this is caused because my matrix have some 0's. The example f ...
somaticsignatures written 4.7 years ago by Francesc Castro20

Latest awards to Francesc Castro

Popular Question 6 months ago, created a question with more than 1,000 views. For SomaticSignatures low mutation rates

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 333 users visited in the last hour