Hemant Gupta

5 Questions 17 Answers 0 Followers

Questions related from Hemant Gupta

How can I calculate p-value to find significant difference between two populations based on the number of variants?

Dear all, I have two populations, POP1 and POP2. Each with 5 samples. No. of VariantsNo. of Samples POP1 POP2 P-value (chi-square)1 ...

06 June 2017 488 2 View

GATK haplotypecaller can be restricted to specific intervals using -L option, but can we add other information with interval files to the VCF?

I have interval.list file with columns including chr, start, end, gene_name, TSS, Strand, as shown below: chr1 958864565 58865165 A1BG 58864865 - chr1 9 58863035 ...

04 April 2017 6,169 1 View

How to pass multiple "argument value" pair using variable in GATK command?

Dear All, I have to call genotype for multiple samples using joint genotyping methedology of GATK best practices, So I made a shell script which take list of samples in a text file as an input,...

01 January 2017 3,209 2 View

Any tool for stem loop RT PCR primer designing for miRNAs?

The size of mature miRNAs range between 22 to 26 bp. So, to design primers for the amplification of these sequences by using traditional (general) primer designing protocol is not applicable...

04 April 2016 6,977 6 View

Can someone please explain me directional and non directional sequencing?

Directional sequencing means both R1 and R2 reads are from the same strand either Watson (+) or Crick (-). That is (case 1): 5'AAATTTGGGCCC3'3'TTTAAACCCGGG5' || ...

04 April 2016 8,595 7 View