User: damonlbp

gravatar for damonlbp
damonlbp20
Reputation:
20
Status:
New User
Location:
Last seen:
1 month, 2 weeks ago
Joined:
2 years, 1 month ago
Email:
d*******@hotmail.co.uk

Posts by damonlbp

<prev • 13 results • page 1 of 2 • next >
0
votes
1
answer
130
views
1
answers
Answer: A: Entries Per File FASTA Splitter, not quite working
... If anyones still watching this, this is my working final product! def read_fasta(filetoparse): # Works as part of entryfunction """A function which opens and splits a fasta into name and seq""" name, seq = None, [] for line in filetoparse: line = line.rs ...
written 7 weeks ago by damonlbp20
0
votes
4
answers
425
views
4
answers
Answer: A: Python FASTA scripting
... Hi All, incase anyone wanted to know this is the function i went with in the end. With some help from people on here and on my course we managed: def FastaSplitter(FileInput, FileOutPut): Name = "" Seq = [] FILE = open(FileInput, 'r') for line in FILE: if ...
written 11 weeks ago by damonlbp20 • updated 11 weeks ago by genomax76k
2
votes
1
answer
130
views
1
answer
Entries Per File FASTA Splitter, not quite working
... Hello again everyone, Once again i'm asking for help, this time I have managed to write a semi-decent script to split a FASTA file into multiple files dependent on a User defined number Problem is, it is only counting headers, so for example counting up to 100 headers in the below example but not ...
gene fasta bioinformatics software error python written 11 weeks ago by damonlbp20
0
votes
1
answer
189
views
1
answers
Comment: C: Chunk That Fasta?
... Thank you so very much, i thought i was starting to go insane. ...
written 12 weeks ago by damonlbp20
0
votes
1
answer
189
views
1
answers
Comment: C: Chunk That Fasta?
... Hi Massa, This worked amazing yesterday after changing a few little things. Opening it up today to try it out again and now each file grows by the size of threshold and I can't figure out what has changed, same input file same script. Could you have a quick look please? FileInput = in ...
written 12 weeks ago by damonlbp20
0
votes
1
answer
189
views
1
answers
Comment: C: Chunk That Fasta?
... Of course, I have the whole genome for Salmonella CT18 in a basic non annotated nucleotide FASTA format. Say I want to break it into chunks of 50kb to ease processing downstream. I think later on, it will be use full to break it into chunks with a number of gene sequences but not yet. And thanks, t ...
written 12 weeks ago by damonlbp20
4
votes
1
answer
189
views
6 follow
1
answer
Chunk That Fasta?
... Hi all, another noob question from me. I finally finished that FASTA Splitter from my last post, which I will update soon. My new task is to Chunk a Fasta File into well... chunks still in Python too. FileInput = input('What is full address of the file you need to work with? ' ) FileOutPut ...
fasta python dna sequence chunk written 12 weeks ago by damonlbp20 • updated 12 weeks ago by massa.kassa.sc3na230
5
votes
4
answers
425
views
9 follow
4
answers
Python FASTA scripting
... Hi all, I finally got that illusive Bioinformatician job and am now undergoing training. My first project is to write a FASTA parsing script that will take a FASTA file and split it into multiple files each containing a gene and its sequence. The task is to be done in pure Python 3.7 so no Biopython ...
fasta python bioinformatics written 3 months ago by damonlbp20 • updated 11 weeks ago by Alex Reynolds29k
0
votes
2
answers
1.6k
views
2
answers
Comment: C: Biopython - Can't find file
... Awesome, I'll give it a go when I get back home. Thanks for the help. ...
written 2.1 years ago by damonlbp20
0
votes
2
answers
1.6k
views
2
answers
Comment: C: Biopython - Can't find file
... Sorry for the late reply, I tried copy/pasting the file into as many directories as I could and retrying the code and still the same error. ...
written 2.1 years ago by damonlbp20

Latest awards to damonlbp

Scholar 7 weeks ago, created an answer that has been accepted. For A: Entries Per File FASTA Splitter, not quite working
Popular Question 2.1 years ago, created a question with more than 1,000 views. For Biopython - Can't find file

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1653 users visited in the last hour