User: safiq713

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safiq7130
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Posts by safiq713

<prev • 6 results • page 1 of 1 • next >
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Keeping loci those have specific number of SNPS
... Dear all I want to keep some loci, only those loci has 4 SNPS (specific number of SNPS). I want to make skyline plot from ddRAD data. Do you have any idea how can go forward Thanks a lot for your help ...
skylineplot written 11 days ago by safiq7130
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Comment: C: Keeping only SNPs
... I filtered my snps with vcftools, do you have any example what i can see, thanks a lot for your kind reply ...
written 9 weeks ago by safiq7130
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Keeping only SNPs
... Dear all, I need help. I have filtered SNP in vcf format, I want to extract only informative sites (SNPs) to FASTA format, How can I do that. Note I am working on ddRAD data. I want to extract only informative sites to make a tree. Do you have any suggestion? Thanks a lot for your kind help. Kind ...
snp written 9 weeks ago by safiq7130
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Fst Calculation and Visualization
... Dear all, I am working with ddRAD data, and I have allele and genotype frequencies of different SNPs in different populations. I have calculated Fst among the population with vcftools, Now I want to calculate pairwise FST then present it with hamilton plot, do you have any suggestion how can make it ...
next-gen snp written 12 weeks ago by safiq7130
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denovo assembler for MobiSeq-whole genome sequencing data
... Dear All, I am new in NGS technology, So far i have ddRAD data, I mapped then closest relative species (it worked nicely). Now I got whole genome data from one of our collaborator of the same species. I think it will improve my results. this is a MobiSeq-whole genome sequencing data ( short Reads ...
denovo assembly written 6 months ago by safiq7130
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NGS-Statistics Analysis (mapping and file formating)
... Deal all some can help me two things I want to cheek my RAD data mapping percentage, as I know i can do that with $ samtools flagstat (........bam file). I want to cheek all the sample with bash command and save it in a text file, how can I that? Second, i call my snps with bcf tools, so got outpu ...
next-gen snp written 6 months ago by safiq7130 • updated 6 months ago by ATpoint36k

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