User: always_learning

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Posts by always_learning

<prev • 241 results • page 1 of 25 • next >
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Illumina genotyped the HapMap populations on the MetaboChip
... Hi All, In this paper https://www.ncbi.nlm.nih.gov/pubmed/25557782 , they mentioned that they have used "Additionally, Illumina genotyped the four original HapMap populations on the MetaboChip, and we used these genotypes to" Can someone help me in knowing that where I can download this data for H ...
hapmap population genetics written 17 days ago by always_learning800
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Answer: A: Gene Expression Downstream Analysis
... Thanks !! Is there any other tools or method or tutorials apart from this as well? Thanks Najeeb ...
written 5 weeks ago by always_learning800
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Gene Expression Downstream Analysis
... Hi, I did Survival Analysis on a Group of genes using TCGA( Thanks to Biostar) and found that some of them have very significant role based on P Values in some Cancers. Now I just wanted to relate these Genes with some other genes very relevant for some important pathways, although my studied genes ...
gene expression survival analysis written 6 weeks ago by always_learning800
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Comment: C: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
... rna_vm <- vm(rna) Show Traceback Rerun with Debug Error in voom(x, d, plot = F) : Need at least two genes to fit a mean-variance trend I am getting above error while running vm function. Can some one help me on this ? ...
written 3 months ago by always_learning800
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Comment: C: Extract KEGG Enzyme data
... import sys f=open(sys.argv[1]) arr=[] for i in f: j = i.strip("\n").split('\t')[1] arr.append(j) print [arr[i:i + 3] for i in xrange(0, len(arr), 3)] This should work for you, assuming that you files is tab seperated file. ...
written 6 months ago by always_learning800
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Comment: C: Error in DADA2
... Can you try this please ? out <- filterAndTrim(fnFs, filtFs, fnRs, filtRs, truncLen=c(240,160), maxN=0, maxEE=c(2,2), truncQ=2, rm.phix=TRUE, compress=TRUE, multithread=FALSE)" ...
written 6 months ago by always_learning800
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Answer: A: Error in DADA2
... mc.cores > 1 is not available for windows. You may try as mc.cores = 1 something like below may work. mcmapply(fastqPairedFilter, mapply(c, fwd, rev, SIMPLIFY = FALSE), mc.cores = 1 ) Can you please try above and let us know. ...
written 6 months ago by always_learning800 • updated 6 months ago by genomax37k
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Answer: A: ROH ( Runs of Homozygosity Analysis)
... Hi I know about all these tools. I am moreover asking about how you will interpret results from these tools ? Is their any tutorials somewhere which can help me to understanding this ? Thanks ...
written 6 months ago by always_learning800
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ROH ( Runs of Homozygosity Analysis)
... Dear All, I want to know about ROH analysis ? How to perform it ? How to interpret out put ROH resut data from tools like plink and bcftols roh etc etc. Is their any tutorial or papers available to learn understand and learn these concepts ? Thanks Najeeb ...
wgs roh written 6 months ago by always_learning800
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Comment: C: GATK - gene panel VCF - too many variants - how to filter out
... You should use bed flle from SureSelect kit. java -jar GenomeAnalysisTK.jar -T HaplotypeCaller \ -R '/home/dee/bioinformatics/_reffiles/hg19/ucsc.hg19.fasta' \ -I '/1234/1234_remdup_recal.bam' \ -o '/1234/1234_remdup_recal.g.vcf' \ --emitRefConfidence GVCF \ --variant_index_ ...
written 6 months ago by always_learning800

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