User: 1234anjalianjali1234

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India
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1 month, 3 weeks ago
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Posts by 1234anjalianjali1234

<prev • 95 results • page 1 of 10 • next >
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Comment: C: Sequence duplication levels in de novo assemblies
... It is clearly indicating that if you remove the duplicated sequences from your data, it will leave only 42.31% of original data. Refer to fastqc report for [bad illumina data][1] . please attach your whole report of fastQC. [1]: https://www.bioinformatics.babraham.ac.uk/projects/fastqc/bad_seque ...
written 12 weeks ago by 1234anjalianjali123430
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EdgeR without replicate?
... I am doing DEG analysis between two sample (Normal vs Treated) without replicates using edgeR. I know there is no significance of analysis without replicates, but i have no other choice. library(edgeR) data = read.table("MYFILE-counts.txt", header=T, row.names=1, com='') bcv <- 0.2 ...
differential' edger corset rna-seq written 12 weeks ago by 1234anjalianjali123430
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Comment: C: edgeR negative bionomial error in without replicate data?
... Actually i need some more answers related to this question. Should i post a new question or modify this one only? ...
written 12 weeks ago by 1234anjalianjali123430
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Comment: C: edgeR negative bionomial error in without replicate data?
... In my second approach I have used my actual count data, as described in the question. Could you please look into that. I know there is no point of the analysis without the replicates, but I have no other choice. ...
written 12 weeks ago by 1234anjalianjali123430
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Comment: C: edgeR negative bionomial error in without replicate data?
... sorry it was by mistake. Even if i am using matrix instead of data, there is error: counts <- matrix(rnbinom(40,size=1/bcv^2,mu=10), 202659,2) Warning message: In matrix(rnbinom(40, size = 1/bcv^2, mu = 10), 202659, 2) : data length [40] is not a sub-multiple or ...
written 12 weeks ago by 1234anjalianjali123430
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Comment: C: edgeR negative bionomial error in without replicate data?
... I have tried typing it myself, but again giving same error. as suggested by you, i have checked my counts dimention: > dim(counts) [1] 202659 2 i have tried this also but nothing worked: counts <- data(rnbinom(40,size=1/bcv^2,mu=10), 202659,2) i have modified my q ...
written 12 weeks ago by 1234anjalianjali123430
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edgeR negative bionomial error in without replicate data?
... I am doing DEG analysis between two sample (Normal vs Treated) without replicates using edgeR: library(edgeR) data = read.table("MYFILE-counts.txt", header=T, row.names=1, com='') bcv <- 0.2 counts <- matrix( rnbinom(40,size=1/bcv^2,mu=10), 20,2) it is giving error: ## W ...
R rna-seq edger no-replicate written 12 weeks ago by 1234anjalianjali123430 • updated 12 weeks ago by ATpoint26k
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Comment: C: How to perform GO annotation? Or assign GO ontology to list of genes?
... would you like to share your solution? ...
written 3 months ago by 1234anjalianjali123430
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Comment: C: dividing file into two files using cutoff value from a column?
... Thankyou, It worked. ...
written 3 months ago by 1234anjalianjali123430
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Comment: C: dividing file into two files using cutoff value from a column?
... cat myfile.txt | awk '$3 > 50' > file_greater_than50.txt But It is not working and also I don't how to apply =< criteria. ...
written 3 months ago by 1234anjalianjali123430

Latest awards to 1234anjalianjali1234

Supporter 11 weeks ago, voted at least 25 times.
Popular Question 13 months ago, created a question with more than 1,000 views. For design matrix for dge
Popular Question 13 months ago, created a question with more than 1,000 views. For design matrix for dge

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