User: nuketbilgen
nuketbilgen • 30
- Reputation:
- 30
- Status:
- New User
- Location:
- United Kingdom
- Last seen:
- 3 days, 18 hours ago
- Joined:
- 3 years, 9 months ago
- Email:
- n**********@gmail.com
Posts by nuketbilgen
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... As you have said, it is working. but now I get this error.
print "\n\n%s command is not yet implemented\n\n" %(x)
^
SyntaxError: invalid syntax
...
written 24 days ago by
nuketbilgen • 30
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... I can find it in /home/nuketbilgen/anaconda3/envs/**my_env**/bin/platypus
as a link to program.
Is it a problem that I have installed it into my_env? ...
written 26 days ago by
nuketbilgen • 30
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... I installed it via conda now.
But I don't know how to run it cause I can not locate Platypus.py file. ...
written 26 days ago by
nuketbilgen • 30
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... Hi everyone. I am trying to use Platypus for variant calling.
even though I have tried everything I could to fix it (moved htslib to usr/local, exported paths to it) I always got the following error.
I deleted and reinstalled platypus and htslib as well.
could you help me, please?
python Pla ...
written 26 days ago by
nuketbilgen • 30
• updated
26 days ago by
ATpoint ♦ 13k
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1
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... Hi everyone,
I have a canine SNP array results from affymetrix, need to make an GWAS between SNP results and characters which has normal distribution. Since I can not divide my results in to two groups I don't know what to do and how to approach to the data sets. I would be glad if you could sugges ...
written 19 months ago by
nuketbilgen • 30
• updated
19 months ago by
GabrielMontenegro • 500
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... Hi,
How about zipped fastq files?
zgrep command is not working. :/ ...
written 2.3 years ago by
nuketbilgen • 30
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... Hi,
We have canine snp array data (CanineSNPHD, ILLUMINA). The positions of the snps in this array are for Canine 2 genome version. So we need to convert this data to canine 3 gv. We used UCSC but it does not take the p values thus we need to delete row by row. It has been exhausting.
I hope tha ...
written 3.2 years ago by
nuketbilgen • 30
• updated
19 months ago by
Biostar ♦♦ 20
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... Hi,
Sorry for my late response.
I have 3 genes in the vcf file.
Thank you.
...
written 3.5 years ago by
nuketbilgen • 30
2
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1
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... Hi!
I need to extract fasta sequences for two genes. I used
java -jar /Users/nuketbilgen/programs/GenomeAnalysisTK-3.3-0/GenomeAnalysisTK.jar -T FastaAlternateReferenceMaker -R $REF -o YK20.fasta -L bTau7_2and6_subset.bed -V YK20_S24S12.raw.g.vcf
but it does not seem to work all of the output fa ...
written 3.5 years ago by
nuketbilgen • 30
• updated
2.9 years ago by
dsosa • 0
0
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1
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1.3k
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1
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... Hi everyone,
I solved it! just needed to ad -c snpEffect.config
java -jar snpEff.jar build -c snpEffect.config -refSeq -v bosTau7
...
written 3.7 years ago by
nuketbilgen • 30
Latest awards to nuketbilgen
Popular Question
19 months ago,
created a question with more than 1,000 views.
For Fasta Alternate Reference Maker extracted fasta files are same as reference
Popular Question
19 months ago,
created a question with more than 1,000 views.
For variant annotation snpeff bosTau7 build
Popular Question
19 months ago,
created a question with more than 1,000 views.
For Fasta Alternate Reference Maker extracted fasta files are same as reference
Popular Question
3.1 years ago,
created a question with more than 1,000 views.
For Same sample with seperete bam files
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