User: Antonio R. Franco

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Spain. Universidad de Córdoba
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21 hours ago
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Posts by Antonio R. Franco

<prev • 594 results • page 1 of 60 • next >
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Comment: C: Gene Ontology enrichment analysis of biological processes for up- and down-regul
... Another posibility is to use **Tools : GO enrichment** feature included into the [PlantRegMet][1] web page, but this does not require the use of R. It gives you some graphics, but you don't have the control of them [1]: http://plantregmap.cbi.pku.edu.cn/ ...
written 21 hours ago by Antonio R. Franco4.3k
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Comment: C: What to do to include data from strawberry in Biomart Ensembl
... Emily.. Thank you for your efforts. Your are very kind.. ...
written 21 hours ago by Antonio R. Franco4.3k
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Comment: A: What to do to include data from strawberry in Biomart Ensembl
... Thank you for your answer... Who has to include that information into the INSDC?. Data is already publicly available in the rosaceae.org pages. Wondering if any of us can give a push to this... ...
written 21 hours ago by Antonio R. Franco4.3k
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Answer: A: Gene Ontology enrichment analysis of biological processes for up- and down-regul
... To be honest, stepwise guidance is obtained from the R vignettes included in each of the packages. By searching into Bioconductor, you can get many different packages dealing with GO (topGo, and the like....) Most cases you only need to adjust the code included into the vignettes with the names of ...
written 22 hours ago by Antonio R. Franco4.3k
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What to do to include data from strawberry in Biomart Ensembl
... Strawberry has got its 4th and mature genome, assembled with PacBio and optical maps. Annotation has very much improved with years But many of us miss that information in key databases like Biomart. An I am wondering what it would be required to get this information included in this database Any c ...
ensembl written 22 hours ago by Antonio R. Franco4.3k
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Comment: A: Bowtie2 perl:warning:Setting local failes
... If you don't have permissions, it is likely you need to contact the administrator of that computer to fix the problem ...
written 5 weeks ago by Antonio R. Franco4.3k
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Comment: C: gene ontology enrichment analysis
... Notice that the EnrichR example file you can load from that page contains 1000 genes... I emphasize that a GO enrichment with such a poor number of genes (19) is unlikely to be performed ...
written 6 weeks ago by Antonio R. Franco4.3k
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Answer: A: gene ontology enrichment analysis
... Almost any program or service will do, like [GO ontology][1] But.. the problem you are facing is that the statistical power you have to run an enrichment with the GO terms included in only 19 genes could be not enough [1]: http://geneontology.org/ ...
written 6 weeks ago by Antonio R. Franco4.3k
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Comment: C: What is in your opinion the current state-of-the-art sequencing platform for gen
... > Having short reads for polishing is encouraged for low coverage in long reads. Are you using HiFi or Long Reads sequencing ? If using HiFi... How the cycling redundancy in the sequencing reduces the truly useful coverage for the assembly ?. I mean that if Sequel II has an throughput of say 10 ...
written 11 weeks ago by Antonio R. Franco4.3k
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Answer: A: What is in your opinion the current state-of-the-art sequencing platform for gen
... A nice revision about modern scaffolding procedures [https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006994&type=printable][1] [1]: https://journals.plos.org/ploscompbiol/article/file?id=10.1371/journal.pcbi.1006994&type=printable ...
written 11 weeks ago by Antonio R. Franco4.3k

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Popular Question 5 months ago, created a question with more than 1,000 views. For Recommended coverage for methylome analysis
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Scholar 14 months ago, created an answer that has been accepted. For A: How to find the Genes present in the sequence?
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Teacher 15 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: is there any databse that provides the promoter of a specific gene?
Popular Question 17 months ago, created a question with more than 1,000 views. For Recommended coverage for methylome analysis
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