User: brunobsouzaa
brunobsouzaa • 510
- Reputation:
- 510
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- Location:
- Brazil
- Last seen:
- 2 days, 11 hours ago
- Joined:
- 5 years, 9 months ago
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Posts by brunobsouzaa
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... I would first create a backup of the table and then proceed with delete! But yes, you can manually delete a MySQL table! ...
written 6 days ago by
brunobsouzaa • 510
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... Can you post an example of your data? You can perform all comparisons that may work for your project. I would create different tables for different comparisons. "Play" with your data, you may find some interesting results! ...
written 6 days ago by
brunobsouzaa • 510
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... What have you tried already? You can import your table in `R`, perform `fisher.test(data)` and see if it works ...
written 9 days ago by
brunobsouzaa • 510
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Comment:
C: LncTar error !!!
... Can you try passing it to the [web interface][1] and see if it works? Your data seems pretty much ok! If there's something that you're missing, the web interface should warn you!
[1]: http://www.cuilab.cn/lnctar#help ...
written 10 days ago by
brunobsouzaa • 510
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... I believe you have to tell `bcftools` to remove snps inside the argument. Can you plz try this: `bcftools norm --rm-dup snps --output output.vcf input.vcf`
Just made a test here and it worked. I'm using `bcftools V 1.10.2` ...
written 23 days ago by
brunobsouzaa • 510
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C: ensembl-vep annotation fail
... Ok.. Thanks. I've found a simple `awk` solution for this task. ...
written 23 days ago by
brunobsouzaa • 510
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C: About shell script
... This is not a Shell script. Do like this:
#!/bin/bash
set -eo pipefail
GATK="/data/share/tools/gatk-4.1.7.0/gatk-package-4.1.7.0-local.jar"
$GATK SortSam -I DRR212437.sam -O DRR212437.sort.bam -SO coordinate --CREATE_INDEX TRUE
Just save this as .sh file and run `ba ...
written 27 days ago by
brunobsouzaa • 510
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... Have you downloaded this file from the web or is it yours? I would suggest getting the original file and then gzip it!
Your file seems corrupted, that's why it's no being recognized as a gzipped file! ...
written 4 weeks ago by
brunobsouzaa • 510
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108
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... What's the output of `gzip -t file` command? ...
written 4 weeks ago by
brunobsouzaa • 510
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90
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Comment:
C: ensembl-vep annotation fail
... Hi Emily. Is there a way to keep VCF fields `QUAL` and `FILTER` when using `tab` output format from command-line Ensembl VEP? ...
written 4 weeks ago by
brunobsouzaa • 510
Latest awards to brunobsouzaa
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For A: Bash script for calling CNVs using cnvkit
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For A: How to analyze Illumina RNASeq data
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5 months ago,
created an answer that has been accepted.
For A: Bash script for calling CNVs using cnvkit
Teacher
5 months ago,
created an answer with at least 3 up-votes.
For A: How to analyze Illumina RNASeq data
Teacher
6 months ago,
created an answer with at least 3 up-votes.
For A: How to analyze Illumina RNASeq data
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19 months ago,
created an answer that has been accepted.
For A: Bash script for calling CNVs using cnvkit
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created a question with more than 1,000 views.
For Trying to visualize .bed file
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created a question with more than 1,000 views.
For Doubt on filtering data from .VCF file
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