I am new to bioinformatics and I need help:((
I have downloaded megahit and working in the 'bin' directory
- I don't know where I am supposed to put my samples
Even if I run the files with the specific directory from bin/Input/R1 and R2 nothing happens
bin$ ./megahit -1 Input/Input-1_S6_L001_R1_001.fastq.gz -2 Input/Input-1_S6_L001_R2_001.fastq.gz -o A_Input
What is wring with my command line?
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written
by
yuki4208 •
1 answer
This part of your command ./megahit means that you have a megahit executable in the present directory. If that's not the case, it won't work.
This part of your command Input/Input-1_S6_L001_R1_001.fastq.gz means that in that same directory you have a sub-directory called Input, and in that sub-directory a file called Input-1_S6_L001_R1_001.fastq.gz. Same for your other paired-end file.
These are possible errors that I can point out without actually knowing the error message. It would help if you post what that error message is.
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