User: nkausthu

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nkausthu20
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Posts by nkausthu

<prev • 51 results • page 2 of 6 • next >
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How to order biostar handbook professional version
... Hi, I would like to order Biostar handbook professional version. where it will be available ? ...
biostar handbook written 23 months ago by nkausthu20 • updated 23 months ago by jared.andrews076.4k
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Identification of break points for a balanced translocation
... Hi, From the karyotype results we could see a balanced translocation in one of the sample and we have whole genome data available for the same sample. It would be really great if someone can give suggestion in this regard. We have extracted the clipped reads aligned to both the chromosome and part ...
balanced translocation wgs breakpoint analysis written 23 months ago by nkausthu20 • updated 23 months ago by Pierre Lindenbaum129k
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Comment: C: Extraction of partially mapped reads from BAM
... I used samextractclip.jar and converted clipped part of the reads into fastq file. Actually I am trying to figure out the breakpoints for a balanced translocation using these reads. Could you please give some suggestion in this regard. ...
written 23 months ago by nkausthu20
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Comment: C: Extraction of partially mapped reads from BAM
... Thank you so much and I could retrieve partially mapped reads using samjdk. I have one more query, I want to retrieve the part of the read sequences which are soft-clipped. Any tools are available for this or do I need to write the code for the same. ...
written 23 months ago by nkausthu20
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Extraction of partially mapped reads from BAM
... Hi, It would be great if anyone can give some suggestion on extracting partially mapped reads from bam/sam generated using BWA or articles which describes more about partially mapped reads. Thank you. ...
partially mapped reads bam bwa written 23 months ago by nkausthu20 • updated 23 months ago by Pierre Lindenbaum129k
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Comment: C: extractPIRs is throwing an ERROR
... Yes .. Programs tells that its duplicate site position but its in different chromosome. But I think it wont be correct if I delete one. ...
written 2.3 years ago by nkausthu20
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extractPIRs is throwing an ERROR
... I am getting an error while using extractPIRs as follows ./extractPIRs --bam bamlist --vcf VCF.gz --out Reading genotypes in [/MOD_recalibrated_variants.vcf.gz] in VCF format * 477 samples ERROR: Duplicate site pos=52264013 ref=C alt=T How can I avoid this kind of scenario? ...
shapeit extractpirs phasing written 2.3 years ago by nkausthu20 • updated 2.3 years ago by genomax87k
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Identification of Common ROH region between two exomes
... Can anyone suggest me the best method to identify common ROH region between two exomes. I have the vcf files for both the samples and I initially used FILTUS but when I cross check FILTUS results manually, I could find heterozygous variants with in the ROH region given by FILTUS. Then I used bcftoo ...
exome roh bcftools filtus written 2.3 years ago by nkausthu20 • updated 2.3 years ago by Biostar ♦♦ 20
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Comment: C: Tools for visualization of CNVs called by XHMM
... Thank you so much.. I will explore this and get back to you ...
written 2.4 years ago by nkausthu20
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Comment: C: Tools for visualization of CNVs called by XHMM
... Please see this link https://ibb.co/dzFKVH ...
written 2.4 years ago by nkausthu20

Latest awards to nkausthu

Popular Question 10 months ago, created a question with more than 1,000 views. For Tools for visualization of CNVs called by XHMM
Popular Question 10 months ago, created a question with more than 1,000 views. For Detection of CNVs
Popular Question 14 months ago, created a question with more than 1,000 views. For Tools for visualization of CNVs called by XHMM
Popular Question 18 months ago, created a question with more than 1,000 views. For Annotation of XHMM VCF file (CNV analysis)
Popular Question 18 months ago, created a question with more than 1,000 views. For Allele frequency calculation
Popular Question 21 months ago, created a question with more than 1,000 views. For Allele frequency calculation
Popular Question 21 months ago, created a question with more than 1,000 views. For Number of homozygous and heterozygous variants

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