User: Daniel

gravatar for Daniel
Daniel3.6k
Reputation:
3,600
Status:
Trusted
Location:
Cardiff University
Last seen:
3 days, 22 hours ago
Joined:
7 years, 5 months ago
Email:
d*****************@googlemail.com

Posts by Daniel

<prev • 362 results • page 1 of 37 • next >
1
vote
3
answers
185
views
3
answers
Comment: C: fasta to bed format with more information that just chr locations
... The $n parameters are the columns when you divide the file up by what is inside the -F'[ ]' box, so if you split the line every time you saw a space, asterix, colon, or period then you'd want the 5th, 6th, 8th and 13th columns to be printed. ...
written 7 weeks ago by Daniel3.6k
0
votes
3
answers
185
views
3
answers
Comment: C: fasta to bed format with more information that just chr locations
... Huh, I was certain that bed format was colon and hyphen but the internet doesn't support that... Maybe I'm going mad. Ok, updating. Edit: I was thinking of UCSC browser formatting apparently. ...
written 7 weeks ago by Daniel3.6k
4
votes
3
answers
185
views
3
answers
Answer: A: fasta to bed format with more information that just chr locations
... My approach is lazier... Just split on the punctuation, pull out the columns you want, and separate by "\t". awk -F'[ *:.]' -v OFS="\t" '{print "chr"$5,$6,$8,$13}' tmp.txt # Output chr2L 22300300 22304444 invader2 ...
written 7 weeks ago by Daniel3.6k
0
votes
0
answers
155
views
0
answers
Tutorial: How to get full taxonomy classification using taxize and myTAI
... There are lots of questions regarding this, and I have asked them myself over the years, but I've recently found this tool which is great and I thought I'd put a standard example. This might not be the best way of parsing the outputs in R, but as a tool it generates all the right data! library( ...
R tutorial taxonomy tool written 10 weeks ago by Daniel3.6k
0
votes
2
answers
341
views
2
answers
Comment: C: convert illumina to fastq Sanger
... Please explain what you are trying to achieve and why, so that we can help you, as this request is confusing. Do you have a bcl file? ...
written 8 months ago by Daniel3.6k
2
votes
2
answers
2.0k
views
2
answers
Answer: A: FASTA file into excel file format?
... There are lots of jokes above, but the honest answer is that you do not want to do this. Once you have converted the file it would be so massive that it would impossible to open and use in excel before any other problems. Further, this is not an appropriate way to read the data, and 99.9% of the tim ...
written 9 months ago by Daniel3.6k
2
votes
6
answers
1.3k
views
6
answers
Comment: C: Preparation for Bioinformatics.SE closing
... Seconding the 'finding my own posts' point, only yesterday I was trying to find an old answer of mine to put to a duplicate question and gave up after 5 mins of searching and scrolling because I couldn't find it. ...
written 12 months ago by Daniel3.6k
4
votes
6
answers
1.3k
views
6
answers
Comment: C: Preparation for Bioinformatics.SE closing
... I think the difficulty searching adds to the repeated low quality questions. ...
written 12 months ago by Daniel3.6k
3
votes
6
answers
1.3k
views
6
answers
Answer: A: Preparation for Bioinformatics.SE closing
... I think that could be solved quite easily with (1 ) a more restricted set of tags for questions to stop fragmenting, and (2) allowing them to be community-suggested so that new users don't have to be blamed for misattributing a question (this works quite well for games on steam) i.e. > **Based o ...
written 12 months ago by Daniel3.6k
1
vote
3
answers
693
views
3
answers
Comment: C: else condition in awk
... If it's not working don't click 'accept' and tell us what the error is. ...
written 15 months ago by Daniel3.6k

Latest awards to Daniel

Scholar 29 days ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Popular Question 4 weeks ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Great Question 6 weeks ago, created a question with more than 5,000 views. For Parsing Genbank Format In Bioperl.
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Popular Question 10 weeks ago, created a question with more than 1,000 views. For Is there a more optimal SAM orientation parsing method?
Great Question 4 months ago, created a question with more than 5,000 views. For Parsing Genbank Format In Bioperl.
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Conferences On Bioinformatics
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Popular Question 4 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Commentator 12 months ago, created a comment with at least 3 up-votes. For C: Why Didn'T Biostar Join Stack Exchange?
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Appreciated 13 months ago, created a post with more than 5 votes. For A: Conferences On Bioinformatics
Scholar 16 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Student 17 months ago, asked a question with at least 3 up-votes. For Rdp, Greengenes And Arb-Silva. Are There Any Advantages Of One Over The Other?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 763 users visited in the last hour