Hello every one.
I'm new on bioinformatics. So, sorry if my question is too basic.
I'm trying to run kmergenie. It hasn't worked when I use reads_file.txt with the files I want to calculate the best k-mer. That's what I'm trying:
$ nano reads_file.txt
-> Paste:
../47G_mapped_1_val_1.fq
../47G_mapped_2_val_2.fq
$ kmergenie -l 21 -k 51 -s 5 reads_file.txt -o 47G_kmergenie
The message is:
running histogram estimation
File reads_file.txt starts with character ".", hence is interpreted as a list of file names
Reading 2 read files
End then it stops.
The only way kmergenie has worked is running one file at the time, but as I have paired end reads it's gonna take too long to finish the work.
Please can anybody help me?
I'm new on bioinformatics. So, sorry if my question is too basic.
I'm trying to run kmergenie. It hasn't worked when I use reads_file.txt with the files I want to calculate the best k-mer. That's what I'm trying:
$ nano reads_file.txt
-> Paste:
../47G_mapped_1_val_1.fq
../47G_mapped_2_val_2.fq
$ kmergenie -l 21 -k 51 -s 5 reads_file.txt -o 47G_kmergenie
The message is:
running histogram estimation
File reads_file.txt starts with character ".", hence is interpreted as a list of file names
Reading 2 read files
End then it stops.
The only way kmergenie has worked is running one file at the time, but as I have paired end reads it's gonna take too long to finish the work.
Please can anybody help me?
Comment