User: murali

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murali90
Reputation:
90
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Trusted
Location:
Germany
Last seen:
8 months ago
Joined:
5 years ago
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Posts by murali

<prev • 21 results • page 1 of 3 • next >
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Comment: C: What is the Normalizing factor?
... I am working on the pipeline development for determining the chromosomal aneuploidy, Where I have to choose the reference database and find the normalizing factor. ...
written 8 months ago by murali90
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What is the Normalizing factor?
... I am confused with the terminology. It could really great and helpful if some able to explain or provide the links to the topic. What Is the normalizing factor based on the Reference Database? How to determine one normalizing factor w.r.t reference database? ...
ngs database written 8 months ago by murali90 • updated 7 months ago by Biostar ♦♦ 20
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Why the Allele frequency changed when using different variant calling tools?
... I am doing variant calling for a sample using SAMtools, GATK, Platypus, Freebayes. I observed the allele frequency generated by different tools varies for the some of variants. The allele frequency has to be same , but why it is changing? ...
variant calling allelic frequncy written 3.3 years ago by murali90 • updated 3.3 years ago by Pierre Lindenbaum115k
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How to get Allele Coverage from bam file or vcf file?
... I am working with targeted sequencing, I want to find the allele coverage? What is the allele coverage, and how can I extract it from bam or vcf file? (If I understood correct, for particular allele how many number of reads mapped) Is that correct? ...
allele coverage sequencing written 3.4 years ago by murali90 • updated 3.4 years ago by RamRS19k
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Why Iontorrent PGM generates high percent of duplicates?
... Possible duplicate: https://www.biostars.org/p/79960/ I am working on the cancer hotspot panel of Iontorrent data. I have generated the alignment (sorted bam file), then ran the mark duplicates module (MarkDuplicates.jar) of picard tools. Astonishingly, 96 percent of reads were duplicates. samtoo ...
mark duplicates picard tools amplicon seq written 3.6 years ago by murali90
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Comment: C: What is the normalization w.r.t to gene expression counts or values?
... hi Martombo.. liked the way of your description for normalization. ...
written 3.7 years ago by murali90
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Comment: C: How to over come "TypeError: argument of type 'int' is not iterable" in python?
... Thanks @ Devon Ryan. Hurry, It worked. I have been working on this couple of days, finally find out the bug. ...
written 3.7 years ago by murali90
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Comment: C: How to over come "TypeError: argument of type 'int' is not iterable" in python?
... Thanks @Devon Ryan ...
written 3.7 years ago by murali90
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Comment: C: How to over come "TypeError: argument of type 'int' is not iterable" in python?
... The error takes place at line 74. elif ( i not in vcf_pos and i in pos): Thanks for notifying me that about semicolon(;) at the end of line and I'll follow this suggestion from now on.  ...
written 3.7 years ago by murali90
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Comment: C: How to over come "TypeError: argument of type 'int' is not iterable" in python?
... The line number 74 ( elif ( i not in vcf_pos and i in pos): ) is the line throws error.  ...
written 3.7 years ago by murali90

Latest awards to murali

Great Question 9 months ago, created a question with more than 5,000 views. For How to over come "TypeError: argument of type 'int' is not iterable" in python?
Popular Question 2.1 years ago, created a question with more than 1,000 views. For What is the normalization w.r.t to gene expression counts or values?
Popular Question 2.1 years ago, created a question with more than 1,000 views. For What are the advantages of using cell-lines over tissue samples of RNA-seq data ?
Popular Question 2.1 years ago, created a question with more than 1,000 views. For Gene prediction and genome assembly
Popular Question 2.1 years ago, created a question with more than 1,000 views. For How to get Allele Coverage from bam file or vcf file?
Student 2.1 years ago, asked a question with at least 3 up-votes. For Snp And Mismatches
Supporter 2.3 years ago, voted at least 25 times.
Appreciated 3.2 years ago, created a post with more than 5 votes. For A: Insert Size And Fragment Size ?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For Snp And Mismatches
Popular Question 3.2 years ago, created a question with more than 1,000 views. For What is the normalization w.r.t to gene expression counts or values?
Popular Question 3.2 years ago, created a question with more than 1,000 views. For What are the advantages of using cell-lines over tissue samples of RNA-seq data ?
Teacher 3.2 years ago, created an answer with at least 3 up-votes. For A: Insert Size And Fragment Size ?
Popular Question 3.6 years ago, created a question with more than 1,000 views. For Snp And Mismatches

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