User: stutterdust

gravatar for stutterdust
Reputation:
0
Status:
New User
Last seen:
2 months, 2 weeks ago
Joined:
3 months ago
Email:
k************@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 stutterdust

<prev • 9 results • page 1 of 1 • next >
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... I removed the `if` statements and as expected all mismatches are printed, but I am not sure how the output can be filtered in Excel in order to accomplish the aforementioned. Or at least, it would require some inventive syntax. I had a go at a pseudo-function below: =Display value IF (within ra ...
written 11 weeks ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... Thanks, runs as expected. Would it also be possible to make a modification where, if it detects X, - or * in a position then it will not print that position in the corresponding site for the other cognate header? e.g. an input of >ZM0001M ME*RK >ZM0001F MEVRK >ZM0002M ...
written 11 weeks ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... Thank you, I'll keep that in mind. I tested the script and it seems to output first all the values for the -M headers in a series of columns, followed by those for all the -F headers. Would it be possible for the matching headers to be paired next to each other as shown in the image? e.g. M/F, M/F ...
written 11 weeks ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... First question, yes. Second question, all the results are ultimately to go into Excel as shown below so I'm looking for whatever format will most easily facilitate that. ![img][1] [1]: https://d3uepj124s5rcx.cloudfront.net/items/28091L241S2Y0L2F0a0z/Screen%20Shot%202017-04-05%20at%2015.35.05.pn ...
written 11 weeks ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... I was wondering if you could help me with a modification to the script, if it's not too much trouble. Initially I was using separate input files in the below format: >A1 Seq >A2 Seq >XX Seq However rather than making individual files I would rather use one super-f ...
written 11 weeks ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... Thanks a bunch, works like a charm! ...
written 3 months ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... Apologies, seems I attached the wrong file. Here is the [protein alignment][1]. It still contains gaps (-) and stops (*) so I suppose these could be excluded along with X. When running the script I got it to output TXT files but I encountered two issues: 1. the amino acid position numbers are all ...
written 3 months ago by stutterdust0
0
votes
1
answer
267
views
1
answers
Comment: C: Simple amino acid polymorphism count
... Thank you so much for this, this seems like it would do what I need. However rather than using the A, B, C example names I should probably have clarified that each FASTA contains unique sequence names, e.g. the first two are always in the format ZM[10-9999]M ZM[10-9999]F while the third is alway ...
written 3 months ago by stutterdust0
10
votes
1
answer
267
views
1
answer
Simple amino acid polymorphism count
... Hi, I am very new to shell scripting and am hoping someone could help me with the below problem I encountered in my bachelor's project. I have a bunch of .fasta files, each containing three amino acid sequences, A, B and C. I need a script that compares every amino acid position in A or B against ...
alignment unix shell written 3 months ago by stutterdust0 • updated 11 weeks ago by st.ph.n860

Latest awards to stutterdust

No awards yet. Soon to come :-)

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 418 users visited in the last hour