Moderator: Michael Dondrup
Michael Dondrup ♦ 42k
- Reputation:
- 42,280
- Status:
- Trusted
- Location:
- Bergen, Norway
- Website:
- https://licebase.org/
- Last seen:
- 59 minutes ago
- Joined:
- 7 years, 5 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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... This might not really solve the problem but:
Does geo have a way to get some hash like sha or md5? If the checksum is ok, I would not bother too much. I would just want to make sure the files are not truncated. ...
written 1 hour ago by
Michael Dondrup ♦ 42k
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C: Help in regard of sequencing data
... Yes, depends on what the requirements are and it is futile to speculate, however, at that level, I would also worry about computational resources. If the supervisors do not provide enough guidance on data selection, do they provide sufficient computational infrastructure? The setup of the pipeline m ...
written 1 hour ago by
Michael Dondrup ♦ 42k
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C: Help in regard of sequencing data
... If possibly, try to avoid working with human data because there are much more restrictions on use of human data than on model organism data, and most pipelines will work comparably more performant on smaller animal genomes. ...
written 1 hour ago by
Michael Dondrup ♦ 42k
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C: Help in regard of sequencing data
... Hello humaira.amin96!
We believe that this post does not fit the main topic of this site.
This question is far to broad, please invest in necessary preparations like doing an internet and literature search.
For this reason we have closed your question. This allows us to keep the site focused
on ...
written 1 hour ago by
Michael Dondrup ♦ 42k
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... Venn diagrams are for depicting the sizes of intersections of sets, so you need to define what the intersection between the databases you have means and implement that first, to determine what you are going to depict. e.g. what does intersect(SILVA, NCBI) mean? Most likely this will involve some se ...
written 20 hours ago by
Michael Dondrup ♦ 42k
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... Surprising answer maybe, you cannot calculate the correct query coverage from tabular output of blast.
Query coverage is **not** **equal** to: **abs(qend-qstart)/qlength**. While often weekly defined, I normally have seen query coverage as the proportion of sequence covered by the alignment. Why i ...
written 1 day ago by
Michael Dondrup ♦ 42k
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... There is no such tool that reliably identifies *all* non-protein coding RNA's de-novo, you need to use a chain of tools and then from my (limited) experience the predictions are pretty bad compared to protein-coding gene prediction for some. The most popular tools:
- [RNAmmer][1] for ribosomal RNA ...
written 1 day ago by
Michael Dondrup ♦ 42k
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... Hello deepak.k.choubey!
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 ...
written 2 days ago by
Michael Dondrup ♦ 42k
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... No, shiny is not a bioinformatics package. ...
written 4 days ago by
Michael Dondrup ♦ 42k
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... Hello zhang.jianhai!
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 ...
written 5 days ago by
Michael Dondrup ♦ 42k
Latest awards to Michael Dondrup
Popular Question
5 days ago,
created a question with more than 1,000 views.
For Closing Aug. 15th: PhD Position in Computational Biology (4 years), Evolution of Gene Regulation, University of Bergen, Norway
Appreciated
15 days ago,
created a post with more than 5 votes.
For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
Teacher
16 days ago,
created an answer with at least 3 up-votes.
For A: I Am Preparing A Course On Ngs: Any Suggestion ?
Scholar
16 days ago,
created an answer that has been accepted.
For A: Can 167 contigs in my genome be stitched in to one fasta sequence
Popular Question
27 days ago,
created a question with more than 1,000 views.
For Closing Aug. 15th: PhD Position in Computational Biology (4 years), Evolution of Gene Regulation, University of Bergen, Norway
Commentator
4 weeks ago,
created a comment with at least 3 up-votes.
For C: What Are Numbers Every Bioinformatician Should Know?
Teacher
6 weeks ago,
created an answer with at least 3 up-votes.
For A: Genomic Alignment And Snp/Indel Calling - My First Ever "Pipeline"
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7 weeks ago,
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For C: R: Error In Scan ... Line 7 Did Not Have 3 Elements
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7 weeks ago,
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For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
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7 weeks ago,
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For C: R: Error In Scan ... Line 7 Did Not Have 3 Elements
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For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
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For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
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10 weeks ago,
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For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
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10 weeks ago,
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For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
Teacher
10 weeks ago,
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For A: Why Does Biostar Cover Questions On Epigenetics, But Not Intelligent Design?
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12 weeks ago,
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For A: Protein Back Translation For Aneides Flavipunctatus
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3 months ago,
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For Recommend Your Favorite Introductory "R In Bioinformatics" Books And Resources
Teacher
3 months ago,
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For A: Comparing Alignments In An Iterative Process With Perl
Scholar
3 months ago,
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For A: Protein Back Translation For Aneides Flavipunctatus
Scholar
3 months ago,
created an answer that has been accepted.
For A: Protein Back Translation For Aneides Flavipunctatus
Teacher
3 months ago,
created an answer with at least 3 up-votes.
For A: Comparing Alignments In An Iterative Process With Perl
Scholar
3 months ago,
created an answer that has been accepted.
For A: Protein Back Translation For Aneides Flavipunctatus
Teacher
3 months ago,
created an answer with at least 3 up-votes.
For A: Comparing Alignments In An Iterative Process With Perl
Scholar
3 months ago,
created an answer that has been accepted.
For A: mirDeep2 using bowtie vs. bwa - why do more aligned reads yield less miRNA
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4 months ago,
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For C: Why Don'T We Use Binary Format?
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