User: deepika lakhwani

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Posts by deepika lakhwani

<prev • 17 results • page 1 of 2 • next >
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Regarding miRNA analysis
... hello.. I have miRNA hybridized CEL files for control and experiment. now i want to find out differential miRNA and also want to identify that how many miRNAs are hybridized. I do not know which package and method was used for miRNA analysis. I did Microarray analysis of RNA cel files and for that ...
mirna microarray written 5.9 years ago by deepika lakhwani170
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Fwd: Regarding miRNA analysis
... yes Gregory.. On Tue, Oct 1, 2013 at 2:36 PM, gregory voisin wrote: > Hi if I understand well: you have 1 cel for the control and 1 cel for the > experiment. > You have no replication? > > > > > ------------------------------ > *De :* deepika lakhwani > *À :* b ...
mirna microarray written 5.9 years ago by deepika lakhwani170
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Answer: A: Regarding miRNA analysis
... hello... Can anyone clear one more thing about the miRNA analysis. As I mention earlier I have two miRNA cel files(rice) for one is control and other one is experiment . when I did analysis for differential miRNA using affylmgUI package. I got total 20707 mirna with significant and non significant ...
written 5.9 years ago by deepika lakhwani170
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Comment: C: regarding makeTranscriptDbFromGFF
... Hii... Ok, i got it. Actually i was thinking warning message also an error and yes its a fuctional txdb and trying so many fuctions and it works.If i want to add chromosome information then what should i do. I am trying but it did not work. I am learning these new things so apologize for asking ver ...
written 5.9 years ago by deepika lakhwani170
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Comment: C: regarding makeTranscriptDbFromGFF
... Hello I am creating transcriptDb object from GFF file using maketranscriptDbFromGFF. I have sequencing data and mapped this data on rice genome using tophat now i want to count the overlaps of my genomic alignments with genes but when i ran it : txdb <- makeTranscriptDbFromGFF(file = "all.gff3 ...
written 5.9 years ago by deepika lakhwani170
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regarding makeTranscriptDbFromGFF
... Hello I apologize for bothering you again. I wanted to use makeTranscriptDbFromGFF function but after loading the Genomicfeatures package and run makeTranscriptDbFromGFF(). I got error Error: could not find function "makeTranscriptDbFromGFF" I do not know that What am I doing wrong. I ran: > ...
written 5.9 years ago by deepika lakhwani170 • updated 5.9 years ago by James W. MacDonald50k
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Comment: C: Regarding multiple hits of same read
... Thank You Steve... On Wed, Sep 25, 2013 at 12:35 AM, Steve Lianoglou wrote: > Hi, > > On Tue, Sep 24, 2013 at 11:04 AM, deepika lakhwani > wrote: > > Thank You...Steve for answering. > > > > Ok...I am reading all the pdfs very carefully and I am satisfy with your &g ...
written 5.9 years ago by deepika lakhwani170
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Regarding multiple hits of same read
... Hello, i have been trying to find out differential expression of gene using different R packages. I have rice illumina sequencing data (pair end) with 100 bp. i mapped the data n rice genome using tophat now i got accepted_hit. bam file in which details of mapping is available. Now i am confused b ...
sequencing written 5.9 years ago by deepika lakhwani170 • updated 5.9 years ago by Steve Lianoglou12k
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Comment: C: Regarding multiple hits of same read
... Thank You...Steve for answering. Ok...I am reading all the pdfs very carefully and I am satisfy with your answer. But please clear my some basic question... which type of reads are selected in differential expression analysis? I understand that only unique mapped reads use for differential expressi ...
written 5.9 years ago by deepika lakhwani170
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Regarding q-value
... Hi.. i am using DEGseq package for differential gene expression analysis. can anyone tell me that the the meaning of q -value and FDR value is same or different. regards deepika [[alternative HTML version deleted]] ...
degseq written 6.2 years ago by deepika lakhwani170

Latest awards to deepika lakhwani

Popular Question 5.9 years ago, created a question with more than 1,000 views. For regarding edgeR
Popular Question 5.9 years ago, created a question with more than 1,000 views. For regarding makeTranscriptDbFromGFF

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