User: nonaa.lucin

gravatar for nonaa.lucin
Reputation:
0
Status:
New User
Last seen:
2 days, 6 hours ago
Joined:
3 weeks, 3 days ago
Email:
n**********@gmail.com

Profile information, website and location are not shown for new users.

This helps us discourage the inappropriate use of our site.

Posts by nonaa.lucin

<prev • 5 results • page 1 of 1 • next >
0
votes
1
answer
42
views
1
answers
Answer: A: Position specific scoring matrix, protr package
... found the solution: the error came from `system.file('P08195.fasta')` , I just removed it , the correct code is: x <- readFASTA('P08195.fasta')[[1]] dbpath <- tempfile("tempdb", fileext = ".fasta") invisible(file.copy('P08195.fasta',to = dbpath) ) pssmmat <- extractPSSM(seq ...
written 3 days ago by nonaa.lucin0
0
votes
1
answer
42
views
1
answer
Position specific scoring matrix, protr package
... I'm trying to calculate "PSSM feature" using protr package. I tried to adapt the example in the documentation to fit my data, but I always get an error. Here is my code: x <- readFASTA('P08195.fasta')[[1]] dbpath <- tempfile("tempdb", fileext = ".fasta") invisible(file.copy(from ...
R pssm protr written 3 days ago by nonaa.lucin0
0
votes
1
answer
139
views
1
answers
Comment: C: PSSM features calculation, python or R , any clue?
... Thanks for your useful and detailed explanation. Actually, I compare a new descriptor with PSSM to validate its performance. I work on a classification problem , I want to classify proteins into categories based on their sequence. The new descriptor achieved high accuracy on the dataset as compa ...
written 23 days ago by nonaa.lucin0
0
votes
1
answer
139
views
1
answers
Comment: C: PSSM features calculation, python or R , any clue?
... Hello Mensur, thanks for your answer. I see in many publications they use PSSM in machine learning , but I don't know how they input this matrix into the model !! , do they flatten the matrix ?? , but how? PSSM is not of fixed size, so if flattened, still can't be used... that's why I'm so confused ...
written 23 days ago by nonaa.lucin0
3
votes
1
answer
139
views
1
answer
PSSM features calculation, python or R , any clue?
... Hi, I need to calculate PSSM profiles of a number of proteins. I've used biopython but it gives me a matrix of sequence length *20 for a whole multiple sequence alignment ... , actually what I need is a matrix with rows representing each protein sequence in the alignment , with fixed length , so tha ...
pssm python R protr written 24 days ago by nonaa.lucin0 • updated 23 days ago by Mensur Dlakic6.9k

Latest awards to nonaa.lucin

Scholar 3 days ago, created an answer that has been accepted. For A: Position specific scoring matrix, protr package

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1998 users visited in the last hour