Question

i need to have a package for reads alignment to reference genome

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hassangiahi • 0

@hassangiahi-11739

Last seen 7.9 years ago

hi..

i need help so much to sole my problem .

i have 4 reds library and one reference genome .after the quality assessment and trimming of the reads i need to aligned the reads to a refrence genome . but i do not find any package for wnidows 7 ( my windows).

my reads format is FASTQ and i want to alignment their to a reference genome....what i doing???

rnaseq • 1.4k views

ADD COMMENT • link updated 8.2 years ago by Hotz, Hans-Rudolf ▴ 400 • written 8.2 years ago by hassangiahi • 0

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No offense, but I think you need more support than people online on a sporadic base can offer. Do you have someone in your institute with more experience with regard to this type of analysis?

ADD REPLY • link 8.2 years ago WouterDeCoster ▴ 130

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Hotz, Hans-Rudolf ▴ 400

@hotz-hans-rudolf-3951

Last seen 4.2 years ago

Switzerland

Have a look at the QuasR package...this should work on windows.

Regards, Hans-Rudolf

ADD COMMENT • link 8.2 years ago Hotz, Hans-Rudolf ▴ 400

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oh yes ....

but this version of QuasR is not compatible whit my windows . since my windows is 32 bit and the QuasR is compatible with 64 bit ....

im very bad luck!!!!!!1

tanle you for your answer!!!!!

ADD REPLY • link 8.2 years ago hassangiahi • 0

score 2 · Accepted Answer · 2016-10-26

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chris86 ▴ 420

@chris86-8408

Last seen 5.0 years ago

UCL, United Kingdom

almost exclusively people use linux or a mac not windows7 for bioinformatics. you probably want to find a bioinformatican. if you want to do it you'll need linux and a tool called tophat and depending on your library size, many cpu cores/ a cluster. if your good at computers you could do it, but it will take a long time to learn everything.