User: arash.iranzadeh1980

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Posts by arash.iranzadeh1980

<prev • 14 results • page 1 of 2 • next >
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(Closed) Statistical test to find significantly different values among pairs
... Hi, I have some measurement values under control and case conditions: case control 10 3 1 2 3 1 2 6 4 1 3 14 10 8 2 2 2 6 1 23 2 11 25 5 What statistical tests are suitable to find rows with values that are significantly different? For example a test confirming that ther ...
significantly different values written 5 months ago by arash.iranzadeh198010
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How to convert tree in phylip format into newick format
... Hi, Anyone knows How to convert tree in phylip format into newick format? Thanks! ...
phylip to newick conversion written 6 months ago by arash.iranzadeh198010 • updated 5 months ago by neutrinoscientist0
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(Closed) Tutorial data for GenomeStudio
... Hi, I installed Illumina GenomeStudio. I want to practice with the software, any one knows where can I download a set of data including *idat, *bpm, *csv, and *cgt files? Thanks! ...
tutorial genome studio written 6 months ago by arash.iranzadeh198010 • updated 6 months ago by RamRS18k
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(Closed) GenomeStudio 2.0 login problem
... Hi, I downloaded GenomeStudio Software 2.0.3 Installer and installed the software, then I registered on Illumina and created a MyIllumina account. When I click on the GenomeStudio icon, it asks for MyIllumine account email and password, and when I insert my account information, the software gives ...
software error genome studio written 7 months ago by arash.iranzadeh198010 • updated 6 months ago by RamRS18k
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Any GWAS tool for bacteria?
... Hi, I have a vcf file containing 210000 variants (SNPs and INDELS) and 1480 individuals from streptococcus pneumonia bacterium. I need a tool to perform a GWAS on this set of variants. Any tool suggestion? ...
any gwas tool for bacteria? written 10 months ago by arash.iranzadeh198010 • updated 10 months ago by natasha.sernova3.1k
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SNP statistical analysis
... Hi, I am doing a genome wide association study on a series of SNPs. I have confronted many statistical tests like logistic regression, fisher exact test, association test, Chi square etc. Is there any good reference or reading materials for studying these tests on SNPs. I need examples with numerica ...
snp statistical analysis written 11 months ago by arash.iranzadeh198010 • updated 11 months ago by AlexRT10
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Comment: C: VCF file analysis to find genome wide association
... Thank you very much, seems useful. ...
written 12 months ago by arash.iranzadeh198010
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VCF file analysis to find genome wide association
... Hi, I have a huge vcf file (2.6 GB) including 1500 individuals from three phenotypes (500 individual from each phenotype). It contains 203846 SNPs and 7174 INDELs. The organism is pneumococcus which is a haploid bacterium. I want to perform a genome wide association study in order to find significa ...
vcf file analysis to find genome wide association written 12 months ago by arash.iranzadeh198010 • updated 12 months ago by Kevin Blighe30k
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Biological Databases Geographical Distribution
... Hi, I am interested to know how biological databases have been distributed worldwide? I think most of them are located in US and Europe. Am I right? Any other important country involved? ...
biological databses geographical distribution written 13 months ago by arash.iranzadeh198010 • updated 13 months ago by Pierre Lindenbaum113k
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Joint variant calling
... Hi, I have 1500 bacterial clean and sorted alignment bam file and I want to call variant and produce a multisample vcf file including 1500 samples. I am going to use GATK and bcftools and then compare results. Bacteria are haploid. In the following commands, -ploidy must be set to 1 or 1500? bcfto ...
joint variant calling written 13 months ago by arash.iranzadeh198010

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