User: r00628112

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r0062811210
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Posts by r00628112

<prev • 19 results • page 1 of 2 • next >
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About Fasta rename
... Hello everyone! For questions about using the dictionary. I would like to change the names of the sequences in the fasta file. I previously created a dictionary based on the name of the replacement. But only the title of the replaced sequence name is saved after the change. How do I change only the ...
fasta python written 4 days ago by r0062811210 • updated 4 days ago by Alex Reynolds31k
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About SNP-based and Indel-based GWAS
... For GWAS analysis, we get different significant points on SNP-based, and Indel-based GWAS. In my opinion, it is understandable, because we conducted exome sequencing. The associated SNP or Indel are dependent event, thus the different pattern are normal. But I got the comments, the variant are just ...
manhattanplot written 8 weeks ago by r0062811210 • updated 8 weeks ago by Kevin Blighe67k
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Comment: C: About RefSeq Accession Number trasformation
... About 2000 gene id. Because I annotated GO term by using protein fasta file, but the gene_id and protein_id are different. Thus, I can not continue the further analysis. ...
written 4 months ago by r0062811210
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About RefSeq Accession Number trasformation
... May anyone gives me some suggestions? I would like to modify a file in transforming the gene_id into protein_id based on this conversion table. Thank you very much https://www.dropbox.com/s/9av18k96ic4224b/Gene%20id_Protein%20id.png?dl=0 [1]: https://www.dropbox.com/s/9av18k96ic4224b/Gene%2 ...
gene id written 4 months ago by r0062811210
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About 10x chromium Gene assembly
... Hello everyone: I followed 10x chromium website tips and ran the supernova program. But the assembly results are not very well. I check the fasta file, the length of contigs (top 10 contigs) are only about 10% than the the length in published genome. Also, I tried another assembly software (Soapd ...
genomeassembly longreads written 4 months ago by r0062811210
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How to make a gene list among a specific QTLs region
... Hi~ everyone After I identified a sequence region from QTLs analysis, and I would like to know how many gene in this region and what kind of gene here. May someone give me some suggestions for this purpose? Thank you very much ...
gene sequence written 5 months ago by r0062811210
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Comment: C: Fail to build a database in SNPeff
... Thanks to your reply. You mean the genome fasta file? but I already put the genome file under cd ../snpEff/data/genomes ...
written 7 months ago by r0062811210
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Fail to build a database in SNPeff
... Hi everyone: I would like to build a database for 'Prunus mume' by following 'Option 2: Building a database from GFF files'(from the manual http://snpeff.sourceforge.net/SnpEff_manual.html) However, I can not build a database successfully. The message is as below: [hsiang@pomology-serverIII ...
build_data_base snpeff written 7 months ago by r0062811210 • updated 7 months ago by ATpoint41k
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Comment: C: The genotype imputation in Beagle always stop on specific step and can not finis
... Ok. Thank you. There are no error message, but an WARNING message showed during processing. (in this photo https://drive.google.com/open?id=1osAetLl0rSG9FlfvnAwlEp3dZm-ZFVc6) And the stop site information are as below: (1) The stop site in the original VCF file: https://drive.google.com/open?id=1bH ...
written 9 months ago by r0062811210
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Comment: C: The genotype imputation in Beagle always stop on specific step and can not finis
... Sure. Thank you so much. (1) The stop site in the original VCF file: https://drive.google.com/open?id=1bHWom4I_ztD5wTMNti9bHvFwRa6eaz8Z (2)The stop site in the beagle imputation file https://drive.google.com/open?id=1RFnAY3ljjykRmibkl7cmz5z4RL-cvAXK ...
written 9 months ago by r0062811210

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