User: genebow

gravatar for genebow
genebow140
Reputation:
140
Status:
Trusted
Location:
USA/Chicago
Scholar ID:
Google Scholar Page
Last seen:
4 days, 6 hours ago
Joined:
2 years, 2 months ago
Email:
c******@gmail.com

Research: repeats and periodicities in genomes, protein-protein interactions, protein structures, microbiome, and NGS data analysis.

Posts by genebow

<prev • 57 results • page 1 of 6 • next >
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Answer: A: Identifying shared exact sequence variants between two datasets
... You may use sliding window approach to align windowed sequence from one genome onto the other genome. ...
written 4 days ago by genebow140
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Comment: C: SNP analysis between two bacterial genomes
... To analyze SNP between two bacterial genomes, you may use histogram plot. You can see my programs at https://github.com/cyinbox/NGS ...
written 6 weeks ago by genebow140
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Answer: A: How can I contribute to the Bioinformatics community as a Software Engineer
... If you have time, you may consider to do independent research in bioinformatics and computational biology, research results can be published as papers, ePrints, and patents. ...
written 10 weeks ago by genebow140
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Comment: C: how to determine bacteria relatedness from two variant calls
... Thank you very much for your suggestions! ...
written 5 months ago by genebow140
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how to determine bacteria relatedness from two variant calls
... When the NGS reads of an unknown bacteria are mapped to two reference genomes for variant calls, how do we determine the relatedness the unknown bacteria to each reference genome? From SNPs, assuming mappings fully cover two reference genomes, is there a metric that determines which reference is c ...
genome next-gen snp written 5 months ago by genebow140 • updated 5 months ago by Ian5.3k
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Answer: A: can variants be called between two genomes?
... Thank you for your solution! ...
written 6 months ago by genebow140
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can variants be called between two genomes?
... Usually, SNP calling is between a reference genome sequence (fasta) and reads (fastq), is it possible to use the commonly used pipeline (BWA alignment and GATK) to call variants between two genomes (fasta files)? For example, I need to find out the SNPs between bacterial strains, which genome se ...
alignment next-gen sequence snp written 6 months ago by genebow140
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Comment: A: Number of SNPs in VCF
... Do you mean the histogram of SNPs in VCF? ...
written 13 months ago by genebow140
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Comment: C: SNP density plot
... How large is the vcf file for 1 million SNPs? ...
written 14 months ago by genebow140
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Answer: A: Phylogenetic tree visualization by Python
... I have already installed ete3 library for Windows. pip installation works fine. ...
written 14 months ago by genebow140

Latest awards to genebow

Popular Question 14 days ago, created a question with more than 1,000 views. For How to display mismatched sequences from alignment when using Biopython
Popular Question 6 months ago, created a question with more than 1,000 views. For How to display mismatched sequences from alignment when using Biopython
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Bioinformatics independent research group
Autobiographer 17 months ago, has more than 80 characters in the information field of the user's profile.

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