User: Daniel

gravatar for Daniel
Daniel3.8k
Reputation:
3,750
Status:
Trusted
Location:
Cardiff University
Last seen:
2 days, 9 hours ago
Joined:
9 years, 1 month ago
Email:
d*****************@googlemail.com

Posts by Daniel

<prev • 366 results • page 1 of 37 • next >
1
vote
0
answers
462
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 12 months ago by Daniel3.8k
1
vote
2
answers
537
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 14 months ago by Daniel3.8k
1
vote
4
answers
756
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 17 months ago by Daniel3.8k
0
votes
0
answers
383
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 18 months ago by Daniel3.8k
1
vote
0
answers
383
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 18 months ago by Daniel3.8k
1
vote
3
answers
744
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 21 months ago by Daniel3.8k
0
votes
3
answers
744
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 21 months ago by Daniel3.8k
4
votes
3
answers
744
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 21 months ago by Daniel3.8k
0
votes
0
answers
1.0k
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 22 months ago by Daniel3.8k
0
votes
2
answers
846
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 2.3 years ago by Daniel3.8k

Latest awards to Daniel

Scholar 4 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Scholar 4 months ago, created an answer that has been accepted. For A: how we can get the accession number of an experiment
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Scholar 4 months ago, created an answer that has been accepted. For A: please some one help me step by step i was really exhausted
Scholar 6 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Great Question 12 months ago, created a question with more than 5,000 views. For Subsample BAM to fixed number of alignments
Epic Question 14 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 18 months ago, created a question with more than 5,000 views. For Subsample BAM to fixed number of alignments
Scholar 21 months ago, created an answer that has been accepted. For A: Correcting sequence reads based on ORF disruption from reference sequence.
Popular Question 21 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Popular Question 21 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: Convert Fas/Qual Into Fastq?
Popular Question 22 months ago, created a question with more than 1,000 views. For Is there a more optimal SAM orientation parsing method?
Popular Question 22 months ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Teacher 2.0 years ago, created an answer with at least 3 up-votes. For A: Conferences On Bioinformatics
Teacher 2.0 years ago, created an answer with at least 3 up-votes. For A: Convert Fas/Qual Into Fastq?
Popular Question 2.0 years ago, created a question with more than 1,000 views. For Determining Transcription Start Sites from multiple RNAseq bioreps
Great Question 2.0 years ago, created a question with more than 5,000 views. For Parsing Genbank Format In Bioperl.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1325 users visited in the last hour