Moderator: 5heikki

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5heikki9.0k
Reputation:
8,980
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Finland
Last seen:
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Joined:
6 years, 11 months ago
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Posts by 5heikki

<prev • 1,202 results • page 1 of 121 • next >
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Comment: C: viral amplicons single-end assembly
... SPAdes does not require paired reads.. ...
written 16 days ago by 5heikki9.0k
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Answer: C: Russian universities for the study of biomedicine
... SPAdes assembler is from Algorithmic Biology Laboratory Russian Academy of Sciences, St. Petersburg Academic University. Can't be that bad.. ...
written 3 months ago by 5heikki9.0k
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Comment: C: Getting around wrong taxids in NCBI virus database
... That's not a mislabeling, SARS-COV-2 is under that taxid https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?id=694009 NCBI taxids are hierarchical, e.g. humans are under many different taxids: eukaryotes, animals, chordata, mammals, etc. ...
written 3 months ago by 5heikki9.0k
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Comment: C: Script makes different file then the manual command, but the command is the same
... 1. Make sure you don't have the results file open in Windows (e.g. reboot) 2. Delete the results file 3. Confirm with ls that the results file no longer exists in that dir 4. Run your script ...
written 3 months ago by 5heikki9.0k
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Comment: C: SAVE biostars.org from FAKE and unnecesary answers
... > I think for being a moderator once should have a specific degree. Otherwise what is the use of higher degree, like PhD I would like to think that people have better reasons for doing a PhD than just being qualified to remove male enhancement spam from biostars :D P.s. Your dismissive attitude ...
written 3 months ago by 5heikki9.0k • updated 3 months ago by Joe18k
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Comment: C: Can not work with a text file in script
... How is it possible to have two files with the same name in the same directory? ...
written 3 months ago by 5heikki9.0k
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Comment: C: filter OTU table based on absolute abundance
... Assuming you have e.g. filtered away singleton reads prior to clustering, why do you feel like you need to filter your OTU table at all? ...
written 4 months ago by 5heikki9.0k
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Comment: C: building all possible phylogenies.
... This can be done by piping GNU parallel to e.g. awk or sed. I don't have an access to a terminal right now but basically just following [this][1] [1]: https://www.gnu.org/software/parallel/parallel_tutorial.html#Multiple-input-sources ...
written 4 months ago by 5heikki9.0k
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Answer: A: How to extract genome from iontorent bam file?
... No need to assemble, just map the reads on to a reference genome and extract the consensus sequence. If everyone did like this the gisaid dataset would be of much higher quality.. ...
written 4 months ago by 5heikki9.0k
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Answer: A: ANI software for comparing large eukaryotic genomes
... This can be done very quickly with [Mash][1]. Read the docs and the paper and marvel how great stuff MinHash and representative sketches truly are. ANI is approximate to one minus Mash distance.. [1]: https://mash.readthedocs.io/en/latest/ ...
written 4 months ago by 5heikki9.0k

Latest awards to 5heikki

Popular Question 15 days ago, created a question with more than 1,000 views. For #saveNCBI - it's a joke, right?
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
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: NCBI API for finding accession numbers?
Commentator 6 months ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Popular Question 7 months ago, created a question with more than 1,000 views. For #saveNCBI - it's a joke, right?
Scholar 10 months ago, created an answer that has been accepted. For A: NCBI API for finding accession numbers?
Scholar 11 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 11 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 12 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 12 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 12 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 13 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Commentator 14 months ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Teacher 15 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?
Good Answer 18 months ago, created an answer that was upvoted at least 5 times. For A: How To Batch Grab All Ko (Kegg Ontology) Terms Associated With Each Kegg Pathway
Teacher 19 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?
Good Answer 19 months ago, created an answer that was upvoted at least 5 times. For A: Script for extracting data from a tab-delimited file
Scholar 20 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 20 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 20 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan

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