Moderator: 5heikki
5heikki ♦ 9.0k
- Reputation:
- 8,980
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- Finland
- Last seen:
- 4 days, 4 hours ago
- Joined:
- 6 years, 11 months ago
- Email:
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Posts by 5heikki
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... SPAdes does not require paired reads.. ...
written 16 days ago by
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... > 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 ...
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... How is it possible to have two files with the same name in the same directory? ...
written 3 months ago by
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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... 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
5heikki ♦ 9.0k
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?
Appreciated
3 months ago,
created a post with more than 5 votes.
For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
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?
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?
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?
Appreciated
16 months ago,
created a post with more than 5 votes.
For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Appreciated
17 months ago,
created a post with more than 5 votes.
For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Appreciated
18 months ago,
created a post with more than 5 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
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?
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