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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years 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 2.0 years ago by nosheenfaiz090

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