User: brunobsouzaa

gravatar for brunobsouzaa
brunobsouzaa510
Reputation:
510
Status:
Trusted
Location:
Brazil
Last seen:
2 days, 11 hours ago
Joined:
5 years, 9 months ago
Email:
b***********@gmail.com

Posts by brunobsouzaa

<prev • 125 results • page 1 of 13 • next >
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Comment: C: Error: mysql table already exists! Is it safe to delete the tables in mysql manu
... 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 brunobsouzaa510
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Comment: C: Fisher exact test for 2 by 20000 table and for 4 by 20000 table
... 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 brunobsouzaa510
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Comment: C: Fisher exact test for 2 by 20000 table and for 4 by 20000 table
... 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 brunobsouzaa510
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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 brunobsouzaa510
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Comment: C: How to remove duplicate SNP IDs from VCF files?
... 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 brunobsouzaa510
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Comment: C: ensembl-vep annotation fail
... Ok.. Thanks. I've found a simple `awk` solution for this task. ...
written 23 days ago by brunobsouzaa510
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Comment: 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 brunobsouzaa510
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Comment: C: LDSC - IOError: Not a gzipped file
... 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 brunobsouzaa510
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Comment: C: LDSC - IOError: Not a gzipped file
... What's the output of `gzip -t file` command? ...
written 4 weeks ago by brunobsouzaa510
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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 brunobsouzaa510

Latest awards to brunobsouzaa

Scholar 3 months ago, created an answer that has been accepted. For A: Bash script for calling CNVs using cnvkit
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How to analyze Illumina RNASeq data
Centurion 3 months ago, created 100 posts.
Popular Question 4 months ago, created a question with more than 1,000 views. For Trying to visualize .bed file
Supporter 4 months ago, voted at least 25 times.
Scholar 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
Scholar 19 months ago, created an answer that has been accepted. For A: Bash script for calling CNVs using cnvkit
Popular Question 4.6 years ago, created a question with more than 1,000 views. For Trying to visualize .bed file
Popular Question 4.6 years ago, created a question with more than 1,000 views. For Doubt on filtering data from .VCF file

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