Moderator: Michael Dondrup

gravatar for Michael Dondrup
Reputation:
42,630
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Trusted
Location:
Bergen, Norway
Website:
https://licebase.org/
Last seen:
24 minutes ago
Joined:
7 years, 7 months ago
Email:
m*******@gmail.com

 

PhD in bioinformatics. Currently Researcher at the Sea Lice Research Centre, responsible for LiceBase, an infrastructure for genomic resources of sea lice, and analysis of genomics data from emerging genomes.

Posts by Michael Dondrup

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Comment: C: If I have a miRNA purified sample, can I use TruSeq Stranded mRNA LT for library
... Hello valopes! We believe that this post does not fit the main topic of this site. Not a bioinformatics question. For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you disagree please tell us why in a reply ...
written 9 hours ago by Michael Dondrup43k
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Comment: C: Non model organism(species) like planaria RNA SEQ analysis especially Gene ontol
... Hello hyojin0912! Questions similar to yours can already be found at: Non model organism(species) like planaria RNA SEQ analysis We have closed your question to allow us to keep similar content in the same thread. If you disagree with this please tell us why in a reply below. W ...
written 16 hours ago by Michael Dondrup43k
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Answer: A: blast results: grepping and replacing
... I think you have a better source for the annotation, and that is the blastdb you used to search in the first place. Try cat myblastresultsfile.txt | cut -f2 | cut -f4 -d'|' | \ blastdbcmd -db myblastdb -entry_batch - -outfmt "%t %L" you need to experiment a little with the -outfmt paramete ...
written 20 hours ago by Michael Dondrup43k
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Answer: A: RepeatModeler cannot be run in parallel
... It seems like the problem is eleredef which does not support parallelism. Blast does use multiple processes, but it seems to be eleredef that takes so long. Round after round it takes longer and I have never seen it use more than 50% CPU. PID USER PR NI VIRT RES SHR S %CPU ...
written 11 days ago by Michael Dondrup43k
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Comment: C: Mycobacterium microarray data for Pathway
... Your explanation does not help, because it is repeating the same statement from before. "Data for pathway" is undefined and not a correct phrase. Please sit back and try to get an understanding of the problem you are trying to solve first. ...
written 11 days ago by Michael Dondrup43k
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Comment: C: Impossible access to DAVID website
... Hello albert.rafels! We believe that this post does not fit the main topic of this site. No longer relevant. For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. If you disagree please tell us why in a reply below ...
written 11 days ago by Michael Dondrup43k
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Comment: C: Mycobacterium microarray data for Pathway
... This is very broad, too short and unspecific, which kind of pathway analysis do you want to do? Please describe what makes your case specific, otherwise a general question on pathway analysis would be as good as any other. ...
written 12 days ago by Michael Dondrup43k
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Comment: C: Finding target genes of a TF
... You have provided insufficient context to resolve your question: - which plant(s): species, genomes, etc. - which TF (a specific one?) - what kind of RNA-seq data Why didn't you describe your problem in detail in the first place? ...
written 12 days ago by Michael Dondrup43k
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Comment: C: How Can I Find Target Genes Of A Transcription Factor with RNA seq Data?
... Hello hodatn! We believe that this post does not fit the main topic of this site. Please don't post your question twice: https://www.biostars.org/p/273985/ . Instead provide sufficient context and attend your old question. For this reason we have closed your question. This allows us to keep the ...
written 12 days ago by Michael Dondrup43k
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Comment: C: Help with the Nature Protocol
... Did you use your own data, or a public dataset? ...
written 16 days ago by Michael Dondrup43k

Latest awards to Michael Dondrup

Teacher 19 days ago, created an answer with at least 3 up-votes. For A: How To Get The Gene Name Interactively In A R Plot
Great Question 20 days ago, created a question with more than 5,000 views. For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
Scholar 6 weeks ago, created an answer that has been accepted. For A: How To Deal With Duplicate Row Names Error In R
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: How To Get The Gene Name Interactively In A R Plot
Good Answer 6 weeks ago, created an answer that was upvoted at least 5 times. For A: How To Deal With Duplicate Row Names Error In R
Teacher 6 weeks ago, created an answer with at least 3 up-votes. For A: How To Get The Gene Name Interactively In A R Plot
Scholar 10 weeks ago, created an answer that has been accepted. For A: Can 167 contigs in my genome be stitched in to one fasta sequence
Teacher 10 weeks ago, created an answer with at least 3 up-votes. For A: I Am Preparing A Course On Ngs: Any Suggestion ?
Commentator 12 weeks ago, created a comment with at least 3 up-votes. For C: What Are Numbers Every Bioinformatician Should Know?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Genomic Alignment And Snp/Indel Calling - My First Ever "Pipeline"
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: R: Error In Scan ... Line 7 Did Not Have 3 Elements
Commentator 3 months ago, created a comment with at least 3 up-votes. For C: R: Error In Scan ... Line 7 Did Not Have 3 Elements
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
Good Answer 4 months ago, created an answer that was upvoted at least 5 times. For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
Scholar 4 months ago, created an answer that has been accepted. For A: Protein Back Translation For Aneides Flavipunctatus
Great Question 5 months ago, created a question with more than 5,000 views. For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources

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