Moderator: jrj.healey

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jrj.healey10k
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Location:
United Kingdom
Website:
http://www2.warwick.ac...
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JRJHealey
Last seen:
3 hours ago
Joined:
3 years, 5 months ago
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Recently finished my PhD, so now I pretend to know what I’m talking about on Bioinformatics forums...

Posts by jrj.healey

<prev • 1,903 results • page 1 of 191 • next >
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Comment: C: make a different color for a given amino acid
... Please, please, don't use Excel. ...
written 3 hours ago by jrj.healey10k
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Comment: C: help with python homework assignments
... Even though you've been entirely transparent about this being a homework question (which is great), and I realise this is a request for compensated help, we typically close homework posts as off topic until we've at least seen an initial attempt at the task from the poster. We try not to do people' ...
written 16 hours ago by jrj.healey10k
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Comment: C: Bash: selecting directory and fasta files from assembly
... What code did you use/try to match based on the similar names? ...
written 16 hours ago by jrj.healey10k
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Comment: C: Should I remove GAPs from alignment before making phylogenetic tree?
... Gaps are as much a part of the alignment as the real characters - RAxML (I believe) is one of the few tools which actually incorporates the gap sites in to its tree reconstruction process. It will likely reduce your bootstrap confidence, and may lead to a harder-to-interpret tree, but that's pretty ...
written 17 hours ago by jrj.healey10k
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Comment: C: Automating Trimmomatic for total Noobs
... Are you trying to run these analyses on your laptop or on the server (the short answer is you could just do both). ...
written 1 day ago by jrj.healey10k
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Comment: C: Bash: For loop with two statements, first statements as input to second with .fa
... You need a semi colon after your echo/awk command and before you call canu: for f in *.fasta; do Gen_size=$(echo "$f" | awk -F'[_.]' '{print $3-$2}') canu -assemble -p asstest -d . genomeSize=$Gen_size -nanopore-raw $f; done ...
written 1 day ago by jrj.healey10k
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Comment: C: Writing a script for quast
... Please show what your input data, desired output and any code you have already tried, looks. ...
written 1 day ago by jrj.healey10k
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Comment: C: Automating Trimmomatic for total Noobs
... `conda` is like `pip`, yes, only much, much easier to use (especially if you're a noob). It's also useful for **precisely** the reason that you don't have permission to install things, since it does everything inside your user directory. No special permissions needed. In fact, it may be one of the ...
written 1 day ago by jrj.healey10k
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Comment: C: Automating Trimmomatic for total Noobs
... Well you have the right attitude, so that’s half the battle. BioPython is a huge library, I use it regularly and still only know half a dozen of the functions anything near what I’d call ‘well’. It’s a constant learning process for us all. It’s pretty easy to know if code is python or not, simply ...
written 2 days ago by jrj.healey10k
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Comment: C: Batch rename RefSeq assembly for the corresponding organism name
... If you have another question, please ask another question. Answers are for answers to the main question only. ...
written 2 days ago by jrj.healey10k

Latest awards to jrj.healey

Commentator 3 days ago, created a comment with at least 3 up-votes. For C: fasta seq header
Teacher 5 days ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Scholar 5 days ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Teacher 20 days ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Scholar 20 days ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 21 days ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 4 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 4 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Cylon 4 weeks ago, received 1,000 up votes.
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Good Answer 5 weeks ago, created an answer that was upvoted at least 5 times. For C: Exporting sequences from Excel
Scholar 5 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Appreciated 5 weeks ago, created a post with more than 5 votes. For A: install some bioinformatic sofwares without root
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Scholar 5 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 5 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 5 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Popular Question 5 weeks ago, created a question with more than 1,000 views. For Merging gff/gbk to create a 'full' gbk
Scholar 6 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Appreciated 6 weeks ago, created a post with more than 5 votes. For A: Replace Sequence IDs in many text files (newick format) - Change script
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: How do can I use Biopython and SeqIO to parse out multiple genes from several NC
Scholar 6 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Scholar 8 weeks ago, created an answer that has been accepted. For A: Script/Application to create a genbank format sub-sequence
Appreciated 10 weeks ago, created a post with more than 5 votes. For A: install some bioinformatic sofwares without root

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