Moderator: 5heikki

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5heikki8.3k
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Posts by 5heikki

<prev • 1,137 results • page 1 of 114 • next >
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Comment: C: How to get a half correlation matrix?
... The answer you get is at most as good as the question you ask: awk 'BEGIN{FS="\t";print 1.0"\n"0.9,1.0"\n"0.5,0.8,1.0}' 1 0.9 1 0.5 0.8 1 ...
written 3 days ago by 5heikki8.3k
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Comment: C: centos and bowtie2
... It's not available in any CentOS 7 repo, thus you cannot install it with yum. Just follow the instructions at Bowtie2 github. If you don't understand what some term like $PATH means, then spend some time with google.. ...
written 4 days ago by 5heikki8.3k
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Comment: C: Can we consider Bioinformatics as a engineering discipline?
... > the science of information interpretation That's such a good way to put it. I might have to steal it for some slides. Although I think the stuff I do currently is more like information extraction :) ...
written 6 days ago by 5heikki8.3k
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Comment: C: Retrieving several bacteria CDS
... wget -i urls.txt ;) ...
written 6 days ago by 5heikki8.3k
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Comment: C: Retrieving several bacteria CDS
... Retrieving bacterial proteomes from the NCBI is easy (you can use the search in this forum to find out more about that). However, coming up with a list that meets your criteria sounds like a lot of manual work, I don't know how you think that some script would help you there.. ...
written 6 days ago by 5heikki8.3k
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Answer: A: centos and bowtie2
... Bowtie2 isn't present in any CentOS 7 repo. That's why yum says that it can't be found. Why do you think tbb-devel has anything to do with this? It's only relevant if you want to compile Bowtie2 from source. Just download the latest release from Bowtie2 github and make your $PATH aware of the binari ...
written 6 days ago by 5heikki8.3k
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Comment: C: Binning Tools for Long Reads/Contigs
... > In this approach, tetranucleotide frequencies and scaffold coverages are combined to organize metagenomic sequences into individual bins, which are predicted from initial identification of marker genes in assembled sequences. > >.. > >Despite careful selection of initialization cond ...
written 8 days ago by 5heikki8.3k
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Comment: C: Binning Tools for Long Reads/Contigs
... Does maxbin use also depth of coverage? That could be the reason as you don't get that dimension with long reads.. ...
written 9 days ago by 5heikki8.3k
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Comment: C: Binning Tools for Long Reads/Contigs
... And how different where the two genomes? No tool will successfully separate e.g. Escherichia coli O157:H7 Sakai and Escherichia coli O157:H7 EC4115.. ...
written 10 days ago by 5heikki8.3k
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Comment: C: Blasting against all assemblies on NCBI without downloading the genomes
... All bacterial assemblies takes less than 600GB space. Surely a supercomputer has that much space to spare. All bacterial proteomes would be like 100GB, if even that.. ...
written 10 days ago by 5heikki8.3k

Latest awards to 5heikki

Good Answer 5 days ago, created an answer that was upvoted at least 5 times. For A: Script for extracting data from a tab-delimited file
Scholar 16 days ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 25 days ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 25 days ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 26 days ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 4 weeks ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Commentator 9 weeks ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Scholar 9 weeks ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 3 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Popular Question 3 months ago, created a question with more than 1,000 views. For Print all rows that are in specified value range based on specific column as pairs
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 4 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Popular Question 4 months ago, created a question with more than 1,000 views. For #saveNCBI - it's a joke, right?
Popular Question 5 months ago, created a question with more than 1,000 views. For #saveNCBI - it's a joke, right?
Commentator 5 months ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For A: Script for extracting data from a tab-delimited file
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 7 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 7 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 7 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Popular Question 8 months ago, created a question with more than 1,000 views. For Bootsrapped tree from a distance matrix

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