User: mandar.bobade60

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Location:
Bangalore
Last seen:
6 years, 3 months ago
Joined:
6 years, 11 months ago
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Research Associate

Posts by mandar.bobade60

<prev • 21 results • page 1 of 3 • next >
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(Closed) Post Imputation Analysis
... Hi, I am doing Genome-Wide Association Study data analysis. So far, before imputaion, QC analysis, association analysis, Imputation went well (of course with great efforts). But, after imputation I am quiet like confused, as I have done my imputation with Impute2. I have converted files from Impute ...
gwas imputation plink written 6.3 years ago by mandar.bobade6080 • updated 5.9 years ago by Biostar ♦♦ 20
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Imputation Using 1000 Genome Phase I V3
... Hi everybody, I am doing Genome Wide Association Study for Indian population. So far, study went well but now stuck with imputation. For this I have following two queries: 1) Since there is no standard Indian reference file, can I use 1000 genome Phase I V3 reference for my imputation in Indian po ...
gwas imputation plink written 6.3 years ago by mandar.bobade6080 • updated 6.2 years ago by Kantale120
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Pca Plot For Microarray Data
... Hi, I have microarray (Agilent) data with me. I have done most of the analysis stuff which were required, such as normalization, differential gene expression analysis, mainly did with limma package. Now, I want to generate PCA plot, I have generated too, but with EMA package, as it seems to be very ...
pca microarray written 6.4 years ago by mandar.bobade6080 • updated 6.4 years ago by Assa Yeroslaviz1.3k
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Comment: C: Bioinformatician At Csi Singapore
... Dear all, I have applied for this sometime in last to last week. But, there is no reply till date, neithr could I see this post on CSI website. Any news regarding this post if anybody has, please share.. ...
written 6.4 years ago by mandar.bobade6080
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Comment: C: Microarray Data Anlysis For Clinical Parameters
... Yeah, you r right. I have likewise 70 samples, I have just mentioned first 5. So in interaction studies, any hint how I can make groups for analysis. ...
written 6.4 years ago by mandar.bobade6080
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Comment: C: Microarray Data Anlysis For Clinical Parameters
... Here, what I am thinking is, analysis between multiple combinations, such as Male Vs Female, age above 60 Vs below 60, ethnicity Asian Vs rest or Ameriacal Vs rest. Is this right? ...
written 6.4 years ago by mandar.bobade6080
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Microarray Data Anlysis For Clinical Parameters
... Hi, I have normalized microarray data with me. For this normalized matrix, I have information file also which contains information about each sample, i.e. ethnicity, sex and age of each sample or subject. Now, I have been asked to provide result tables based on parameters, mentioned in infomation f ...
R limma written 6.4 years ago by mandar.bobade6080 • updated 6.4 years ago by Sean Davis26k
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Comment: C: Ld Plot Via Haploview
... The number of columns in .ped file is 1661342, i.e. 1661342 - 6 / 2 = 830668 Genotypes. The number of rows in .hmap files is 830668. So, I think the file numbers is not the problem. But still it is showing problem "Invalid Genotype at line 1". ...
written 6.4 years ago by mandar.bobade6080
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Comment: C: Ld Plot Via Haploview
... I have edited my post and included the initial few lines of .hmap and .ped files. ...
written 6.4 years ago by mandar.bobade6080
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Ld Plot Via Haploview
... I have encountered a problem while loading the locus information file (.hmap) and genotype file (.ped format) onto haploview. Error in first line in the genotype file Can anyone help me out? I've nearly 200,000 markers for analysis, other analysis and graphs of GWAS are coming well but not LD plo ...
genotype haploview plot written 6.4 years ago by mandar.bobade6080

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