User: Daniel

gravatar for Daniel
Daniel3.7k
Reputation:
3,740
Status:
Trusted
Location:
Cardiff University
Last seen:
1 month ago
Joined:
8 years, 10 months ago
Email:
d*****************@googlemail.com

Posts by Daniel

<prev • 366 results • page 1 of 37 • next >
1
vote
0
answers
409
views
0
answers
Comment: C: Research Associate in Genomics / Statistical Genetics (USA)
... This is an interesting requirement: "*A Ph.D. earned no earlier than 2015 is required*". What is the rationale behind that? ...
written 8 months ago by Daniel3.7k
1
vote
2
answers
429
views
2
answers
Answer: A: Bioinformatic tools for MyCOBIOME analysis.
... There are ITS databases that are used with qiime2 and several tutorials and pipelines that people have written up: https://github.com/gregcaporaso/2017.06.23-q2-fungal-tutorial https://forum.qiime2.org/t/its-data-in-qiime2/4087 As long as you're using the correct database it should all be fine to ...
written 11 months ago by Daniel3.7k
1
vote
4
answers
710
views
4
answers
Comment: C: Bioinformatics terms that might be confusing for beginners
... Or Just Another Bogus Bioinformatics Algorithm! http://www.acgt.me/blog?tag=jabba ...
written 13 months ago by Daniel3.7k
0
votes
0
answers
325
views
0
answers
Comment: C: Statistically defining deep branching clades in phylogenetic tree
... Thanks for the suggestion. I've been giving it a go but it's basically only identifying everything into one cluster. Having a look at ete but not solved it yet. ...
written 15 months ago by Daniel3.7k
1
vote
0
answers
325
views
0
answers
Statistically defining deep branching clades in phylogenetic tree
... I have a phylogenetic tree which visually has 3 major clades, one of which forks into two minor clades. I am discussing the groups in the text in regards to the metadata but I want to statistically/technically describe why the groups are seperate. What is the best way to achieve this? The tree is U ...
phylogenetics trees written 15 months ago by Daniel3.7k
1
vote
3
answers
678
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 18 months ago by Daniel3.7k
0
votes
3
answers
678
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 18 months ago by Daniel3.7k
4
votes
3
answers
678
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 18 months ago by Daniel3.7k
0
votes
0
answers
854
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 19 months ago by Daniel3.7k
0
votes
2
answers
771
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 2.1 years ago by Daniel3.7k

Latest awards to Daniel

Scholar 3 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Great Question 9 months ago, created a question with more than 5,000 views. For Subsample BAM to fixed number of alignments
Epic Question 11 months ago, created a question with more than 10,000 views. For Rdp, Greengenes And Arb-Silva. Are There Any Advantages Of One Over The Other?
Great Question 15 months ago, created a question with more than 5,000 views. For Subsample BAM to fixed number of alignments
Scholar 17 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Popular Question 18 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Popular Question 18 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Great Question 18 months ago, created a question with more than 5,000 views. For Parsing Genbank Format In Bioperl.
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Popular Question 19 months ago, created a question with more than 1,000 views. For Is there a more optimal SAM orientation parsing method?
Popular Question 19 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Great Question 21 months ago, created a question with more than 5,000 views. For Parsing Genbank Format In Bioperl.
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: Conferences On Bioinformatics
Popular Question 21 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1220 users visited in the last hour