User: v27
v27 • 10
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Posts by v27
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... I want to detect copy number variation in fungi data (paired-end, Illumina data). The data is as following:`2 sensitive
2 resistant strains
1 reference`
Could someone suggest me a tool for detecting CNV.
...
written 26 days ago by
v27 • 10
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Comment:
C: Copy number variation detection
... thank you.
I am not working on tumor data. I have a reference fungi sequence. and four other fungi samples. I have 2 objectives:
to find the SNPs and second to find the copy number variation among genes.
I have successfully detected the SNPs using samtools and vcf tools.
I am stuck with detectio ...
written 4 weeks ago by
v27 • 10
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C: Copy number variation detection
... thank you. I appreciate it. I will keep it in mind for the future. ...
written 4 weeks ago by
v27 • 10
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... `Hi
I trying to detect copy number variation using varscan:
the command that i used is
samtools mpileup -q 1 -f Reference.fa k_output_bowtie2.bam | java -jar VarScan.v2.3.9.jar copynumber varscan_S14 --mpileup 1
i get the following error:
[mpileup] 1 samples in 1 input files
Set ...
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... i want to detect copy number variation among gene from whole genome sequencing data of bacteria. I have an idea how to detect the SNP/SNV's.
i have the used sam/bam/vcf/bcf tools to detect it.
I have tried using the VarScan ...but i get an error.
Could someone suggest a command line tool to det ...
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... could you give reference to an article that supports RMSD value should be close to zero
...
written 6 weeks ago by
v27 • 10
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