User: nosheenfaiz09

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Posts by nosheenfaiz09

<prev • 11 results • page 1 of 2 • next >
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Answer: A: converting fasta file into bam file
... Dear  b.nota  Thank you for your reply. Yes, you are right and I did alignment and saved it as bam file but now I DONT KNOW HOW TO GET COUNT MATRIX FROM THIS BAM FILE. ...
written 4 months ago by nosheenfaiz090
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count matrix from BAM file
... Hi there, Can anyone tell me how to get count matrix from BAM file in R? Thanks ...
count matrix written 4 months ago by nosheenfaiz090
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Comment: C: converting fasta file into bam file
... Thank you yes fasta is Raw file file i have to covert fasta file into bam file so that i could align the sequences.. ...
written 4 months ago by nosheenfaiz090
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converting fasta file into bam file
... Hi all, I am new in using bioconductor can anybody tell me how to convert fasta file into bam file?? can you provide me the code? many thanks ...
ngs written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
... This worked out source("http://bioconductor.org/biocLite.R") biocLite("Biostrings") require(Biostrings) filepath1 <- system.file("extdata", "someORF.fa", package="Biostrings") readDNAStringSet(filepath1) Now another problem is  source("http://bioconductor.org/biocLite.R") biocLite("Rsamtools") ...
written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
... source("http://bioconductor.org/biocLite.R") biocLite("Biostrings") library(Biostrings) filepath1 <- system.file("extdata", "someORF.fa", package="Biostrings") readDNAStringSet(filepath1) I tried this but not working ang says there is no Biostrings package ...
written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
... > filepath1 <- system.file("extdata", "someORF.fa", package="Biostrings") > readDNAStringSet(filepath1) Error in readDNAStringSet(filepath1) :    could not find function "readDNAStringSet" I dont know what going wrong. It is also not working. Please guide me I am not good in R thats why. ...
written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
...  myrawfile <- readRNAStringSet("abc.fasta") Error in .Call2("new_input_filexp", filepath, PACKAGE = "XVector") :    cannot open file 'abc.fasta' Thats why I am not able to read fasta file in R ...
written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
... I did but even afer installing Biostring i am getting this message > ?biostrings No documentation for ‘biostrings’ in specified packages and libraries: you could try ‘??biostrings’ ...
written 4 months ago by nosheenfaiz090
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Comment: C: Problem in installing bioconductor
... Thank you  I want to use Biostrings it gives this messsage and somtimes says that biostrings package not found. > biocLite("Biostrings") BioC_mirror: https://bioconductor.org Using Bioconductor 3.5 (BiocInstaller 1.26.0), R 3.4.1 (2017-06-30). Installing package(s) ‘Biostrings’ Warning: package ...
written 4 months ago by nosheenfaiz090

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