User: bio90029

gravatar for bio90029
bio9002910
Reputation:
10
Status:
New User
Location:
Last seen:
13 hours ago
Joined:
10 months ago
Email:
b*******@yahoo.com

Posts by bio90029

<prev • 35 results • page 1 of 4 • next >
0
votes
0
answers
85
views
0
answers
Changing a record sequence for another sequence
... Hi, Is there any method that I can use to change the DNA sequence of a record with another sequence? I am just working on a script to curate gene sequence from a fasta file. I have managed to do and extract everything I need to in order to add missing bases. Now my final steps is to replace the sequ ...
python biopython written 17 hours ago by bio9002910
1
vote
0
answers
158
views
0
answers
Comment: C: problems to split fasta files with biopython scripts
... Hi, Thanks. I found where the problem lied. When, I was preparing a little file to post it for you, I saw something odd. I noticed that I had 96 sequences per gene instead of the 93. So I deleted the bad file, and run the full script (this one has several def():), and I got the right file, and it wa ...
written 18 days ago by bio9002910
0
votes
0
answers
158
views
0
answers
Comment: C: problems to split fasta files with biopython scripts
... Hi, Yes, you understood right. I know it doesn't split by name. By the file I tried to split is order, and the first 93 sequences are gene-1, and the following 93 are gene_2, and so on. So I thought that by adjusting the batch size to 93, it would split the file, and produce the files I need it. But ...
written 19 days ago by bio9002910
0
votes
0
answers
158
views
0
answers
Comment: C: problems to split fasta files with biopython scripts
... It doesn't give an error as it does the iteration. But instead of producing files with 93 sequences on each, it duplicates the files producing two files with 93 sequences per gene id i.e. gene_1, and then it does produce other files with mixed gene id i.e., gene_1 + gene_1001. The identation is the ...
written 20 days ago by bio9002910
3
votes
0
answers
158
views
0
answers
problems to split fasta files with biopython scripts
... Hi, I have a large fasta file about ~200,000 KB. The files consist of around 1800 genes, more or less the structure of the file is : >gene_1 ['chromosomal replication initiator protein'] H15100067005-3045-2-1_gnl|BL_ORD_ID|87 NODE_88_length_41459_cov_22.304518 seq >gene_1 [' ...
python biopython written 21 days ago by bio9002910
0
votes
1
answer
11k
views
1
answers
Comment: C: Concatenate Multiple .Fasta Files
... Sorry, I got mistaken. ...
written 25 days ago by bio9002910
0
votes
2
answers
170
views
2
answers
Comment: C: how to combine multiple fasta file into a larger fasta file
... Sorry to disappoint you but I use python as my prefer language, and the one I understand the most. ...
written 25 days ago by bio9002910
3
votes
2
answers
170
views
6 follow
2
answers
how to combine multiple fasta file into a larger fasta file
... Hi, I have about 93 fasta file that I would like to combine in a single bigger one without losing any sequence in the process. I had a look around but I have only seen perl or bash, and I would like to do this with python. Any suggestions on how I can do this, please? ...
python biopython written 25 days ago by bio9002910 • updated 25 days ago by a.zielezinski7.3k
1
vote
1
answer
204
views
1
answers
Answer: A: how to extract genes from a fasta file in groups of 2, query-object, and store t
... The answer is this little biopython script that I am going to post the link in case someone else is in the need to do the same than me. [http://biopython.org/wiki/Split_large_file][1] ...
written 4 weeks ago by bio9002910
0
votes
1
answer
207
views
1
answers
Comment: C: from blast xml to fasta file with python
... It has been answered ...
written 4 weeks ago by bio9002910

Latest awards to bio90029

Scholar 25 days ago, created an answer that has been accepted. For A: from blast xml to fasta file with python
Scholar 4 weeks ago, created an answer that has been accepted. For A: from blast xml to fasta file with python
Scholar 4 weeks ago, created an answer that has been accepted. For A: from blast xml to fasta file with python

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 928 users visited in the last hour