Moderator: h.mon

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h.mon26k
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Posts by h.mon

<prev • 3,765 results • page 1 of 377 • next >
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Comment: C: Difference between Illumina indexes and Illumina barcode?
... Hello Tman! We believe that this post does not fit the main topic of this site. Not a bioinformatics question. SeqAnswers is a better suited forum for this question. In addition, please include examples of your statements to improve your question. For this reason we have closed your question. Th ...
written 1 day ago by h.mon26k
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Answer: A: Bowtie2 simple alignment errors?
... The space between the variable name and the string you want to assign to it means bash will not interpret this as an assignment to a variable, it will interpret it as a command followed by a parameter to this command. See [Spaces in variable assignments in shell scripts][1]. Hence all variables are ...
written 1 day ago by h.mon26k
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Comment: C: Download CAZy database
... https://www.biostars.org/p/389279/ ...
written 2 days ago by h.mon26k
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Answer: A: How to remove duplicate fasta sequences from a file
... Concatenate the fastas and use [Dedupe][1] or [CD-HIT][2]. [1]: https://jgi.doe.gov/data-and-tools/bbtools/bb-tools-user-guide/dedupe-guide/ [2]: https://github.com/weizhongli/cdhit ...
written 4 days ago by h.mon26k
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Answer: A: How can I align two proteomes?
... You don't describe your data in detail, so I will assume you want to find the orthologous proteins between two protein sets. There are many pipelines for this task, for the good old [OrthoMCL][1] to more recent implementations like [OMA][2] or [Proteinortho][3]. [1]: https://orthomcl.org/orthomc ...
written 4 days ago by h.mon26k
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Comment: C: Batch effects and MDSPlot in limma
... Relevant post: https://www.biostars.org/p/356810/ ...
written 5 days ago by h.mon26k
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Comment: A: mirDeep-P file needed for plant miRNA prediction
... Although extracting from the downloaded file does indeed results in an error message, it seems the scripts are there? tar -xzf miRDP1.3.tar.gz > gzip: stdin: invalid compressed data--crc error > gzip: stdin: invalid compressed data--length error > tar: Skipping to next he ...
written 6 days ago by h.mon26k
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Comment: C: SnpEff annotation keeps throwing Java Errors
... If the answer solved your problem, then please up-vote it and toggle the accepted flag. ...
written 10 days ago by h.mon26k
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Answer: A: UTR sequence extraction
... Probably the [biomaRt user guide][1] covers your question. For example, it has an example showing how to [Retrieve all 5’ UTR sequences of all genes that are located on chromosome 3 between the positions 185,514,033 and 185,535,839][2]. [1]: https://www.bioconductor.org/packages/devel/bioc/vigne ...
written 10 days ago by h.mon26k
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Comment: C: >99% unmapped reads
... Maybe the sequencing is not from *Drosophila melanogaster*? You can check a few reads with blast to check if you really have *D. melanogaster* reads, or you can quickly check the sequencing run with [BBTools SendSketch][1]. [1]: http://seqanswers.com/forums/showthread.php?t=74019 ...
written 11 days ago by h.mon26k

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