User: jaybee
jaybee • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- South Korea
- Last seen:
- 3 months ago
- Joined:
- 5 months, 1 week ago
- Email:
- j***********@gmail.com
|| Instrumentation and Control Er. || MS Scholar in BioNano Science and Technology || Academic Research Scholar in Bioinformatics ||
| Molecular Genetics | Geneset Analysis | RStudio | Biostatistics | Nanotechnology | Genome and Exome Sequencing |
Posts by jaybee
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... Hello jaybee!
We believe that this post does not fit the main topic of this site.
I closed this post as I have received the solution of my question.
For this reason we have closed your question. This allows us to keep the site focused
on the topics that the community can help with.
If you dis ...
written 4 months ago by
jaybee • 10
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... Hello fin swimmer
1. I am using the latest version of bcftools 0.1.19
2. I am not sure, because I am still learning and I do not know which command is best suited for which purpose.
3. I know That I have 4 sets of cases, with the same sample names, but i do know that they are from different patien ...
written 4 months ago by
jaybee • 10
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Woah! It works !! Thank you! :)
...
written 4 months ago by
jaybee • 10
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... Hello
I have a directory named cases, where I have 4 .vcf.gz files of merged vcf files of Indels and another 4 .vcf.gz files of merged vcf files of SNPs.
I want to now merge all the 4 merged indels into 1 file.
I received these 4 sets of indels and snps into 4 separate folders, and for set 1, t ...
written 4 months ago by
jaybee • 10
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... Hello
I have a directory named "set" where I have 4 sets namely set1, set2, set3, and set4. Each set has 50 Indel vcf files and 50 SNP vcf files. The files are vcf.gz format along with their index files, .vcf.gz.tbi.
In each set, for Indel as well as for SNP, I created a list for only the vcf fil ...
written 4 months ago by
jaybee • 10
• updated
4 months ago by
Pierre Lindenbaum ♦ 121k
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... To merge multiple vcf files into a single vcf file from different samples,
we can try the code below:
/PATH/to/bcftools merge Home/data/*vcf.gz -Oz -o Merged.vcf.gz
[considering that your files A.vcf.gz , B.vcf.gz and so on are in the Home directory, under the folder data]
[If your bcfto ...
written 4 months ago by
jaybee • 10
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Answer:
A: Merging vcf files ?
... You can try `/PATH/to/bcftools merge Home/data/*vcf.gz -Oz -o Merged.vcf.gz`
[considering that your files A.vcf.gz , B.vcf.gz and so on are in the Home directory, under the folder data]
[If your bcftools is installed in the usr/bin directory then simply use:
/usr/bin/bcftools merge Home/data/ ...
written 4 months ago by
jaybee • 10
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... You can try `/PATH/to/bcftools merge Home/data/*vcf.gz -Oz -o Merged.vcf.gz`
[considering that your files A.vcf.gz , B.vcf.gz and so on are in the Home directory, under the folder data]
[If your bcftools is installed in the usr/bin directory then simply use:
/usr/bin/bcftools merge Home/data/ ...
written 4 months ago by
jaybee • 10
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... You can try `/PATH/to/bcftools merge Home/data/*vcf.gz -Oz -o Merged.vcf.gz`
[considering that your files A.vcf.gz , B.vcf.gz and so on are in the Home directory, under the folder data]
[If your bcftools is installed in the usr/bin directory then simply use:
/usr/bin/bcftools merge Home/data/ ...
written 4 months ago by
jaybee • 10
0
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... after I run
echo `$command` ;
It gives me error message:
Failed to open vcf.list: unknown file type
...
written 4 months ago by
jaybee • 10
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