User: Swimming bird

gravatar for Swimming bird
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Posts by Swimming bird

<prev • 27 results • page 1 of 3 • next >
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Comment: C: Extract gRNA sequence using cutadapt
... Yes. that's the problem but I took a look to the guide and I didn't find any option to do what I want to do. ...
written 8 days ago by Swimming bird20
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Comment: C: Extract gRNA sequence using cutadapt
... This code works (it finds the sequences) but it removes the gRNA sequence... I would be grateful if you could answer again. ...
written 9 days ago by Swimming bird20
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Comment: C: Extract gRNA sequence using cutadapt
... The problem is that I have to analyse data generated by 60,000 gRNAs (all of them have to be searched in each fastq). Is it possible to do it with that number of gRNAs? ...
written 16 days ago by Swimming bird20
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Extract gRNA sequence using cutadapt
... I want to analyse data from a CRISPR/Cas9 screen (control vs. treatment) and I'm using Mageck (https://sourceforge.net/projects/mageck/). Mageck calculates the trim length of reads automatically but in case the trim is variable the program recommends the user to use cutadapt. I used cutadapt to rem ...
crispr trimming cutadapt sequencing written 16 days ago by Swimming bird20
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Comment: C: Coverage table and exons (MySQL)
... In case there are 3 exons I suppose there will be 3 different records in the coverage table, right? Do you know any example of a database that store coverage data? I couldn't find any. ...
written 5 months ago by Swimming bird20
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Comment: C: Coverage table and exons (MySQL)
... Do you mean 3 tables or only one that includes chromosome, transcripts and exons? ...
written 5 months ago by Swimming bird20
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Comment: C: Coverage table and exons (MySQL)
... Ok, sorry. I deleted the post on stackexchange. ...
written 5 months ago by Swimming bird20
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Coverage table and exons (MySQL)
... I am working on a NGS database using MySQL and I found a problem to create the table for coverage data. Each row contains an interval of the entire exome sequenced. The problem I found is related to the exons because in most cases there is more than one exon and they are separated by commas, for ex ...
ngs mysql database exons written 5 months ago by Swimming bird20 • updated 5 months ago by Pierre Lindenbaum124k
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Coverage table and exons
... I am working on a NGS database and I found a problem to create the table for coverage data. Each row is a contains an interval of the entire exome sequenced. In some cases, there are multiple transcripts per interval. For this reason, I created an extra table to collect all the NMs ids. The problem ...
coverage database mysql ngs exons written 6 months ago by Swimming bird20
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Comment: C: N:M or 1:M relationship?
... I think the same but I found an example with products and two columns of colours and in that case the relationship is considered as 1:M although a colour can be present in several products. ...
written 9 months ago by Swimming bird20

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