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Search: Posts Made By: echo manolis
Forum: General 01-14-2020, 07:27 AM
Replies: 4
Views: 1,475
Posted By echo manolis
Hi r.rosati, thanks a lot for your reply but...

Hi r.rosati,

thanks a lot for your reply but they are Illumina data. I was looking for the command to use and the reference list file (maybe gene names with their coordinates ...) in order to...
Forum: General 01-14-2020, 03:35 AM
Replies: 4
Views: 1,475
Posted By echo manolis
Hi, #intervals_sort_merge.bed ...

Hi,

#intervals_sort_merge.bed

chr7 117119991 117120226
chr7 117144281 117144442
chr7 117149062 117149221
...

#output samtools depth
Forum: General 01-12-2020, 01:16 AM
Replies: 4
Views: 1,475
Posted By echo manolis
target coverage x gene

Hi,

I have a big list of genes and I want to know the uncovered regions (0X) of each gene (WES data).

In "Genome Browser -> Tools -> Table Browser" I can give as input the gene list and in this...
Forum: Bioinformatics 01-24-2018, 05:50 AM
Replies: 1
Views: 1,354
Posted By echo manolis
GATK4, bash script... step CreateSequenceGroupingTSV

Ubuntu, Bash 4.2.25



Hi!

I copy and paste the code about CreateSequenceGroupingTSV and in this way I created a python file...
When I'm going to run it I have the following error:
...
Forum: Bioinformatics 01-19-2018, 10:44 PM
Replies: 2
Views: 2,002
Posted By echo manolis
ok thanks. I will try and I will let you know! ...

ok thanks. I will try and I will let you know!

Best
Forum: Bioinformatics 01-19-2018, 05:36 AM
Replies: 2
Views: 2,002
Posted By echo manolis
Question FastQC, v0.11.5, error: Too many tiles ...

Ubuntu

Hi,

I have FastQC, v0.11.5 and I want to evaluate an Illumina run (pairend). I have reads of 150bp and a average coverage near to 60X.

When I run FastQC after some time I have this...
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