Hi everyone,
I am new to this forum and not at all familiar with bioinformatics.
I am just starting to learn how to use Bowtie to make alignments from solexa next gen sequencing fastq files.
Here is how I ran it:
bowtie hg18 reads/Pool7_BC1_read1 Pool7_BC1_read1_output.txt
But I got this error message:
"Warning: Could not open read file "reads/Pool7_BC1_read1" for reading; skipping...
Command: bowtie hg18 reads/Pool7_BC1_read1 Pool7_BC1_read1_output.txt"
My files, such as "Pool7_BC1_read1", are FASTQ but don't have an extension. Is that the reason why Bowtie can't read them? I tried to add an extension but it didn't work either though.
I guess I am doing something wrong but I can't figure out what it is.
Thanks very much for your help,
AV
I am new to this forum and not at all familiar with bioinformatics.
I am just starting to learn how to use Bowtie to make alignments from solexa next gen sequencing fastq files.
Here is how I ran it:
bowtie hg18 reads/Pool7_BC1_read1 Pool7_BC1_read1_output.txt
But I got this error message:
"Warning: Could not open read file "reads/Pool7_BC1_read1" for reading; skipping...
Command: bowtie hg18 reads/Pool7_BC1_read1 Pool7_BC1_read1_output.txt"
My files, such as "Pool7_BC1_read1", are FASTQ but don't have an extension. Is that the reason why Bowtie can't read them? I tried to add an extension but it didn't work either though.
I guess I am doing something wrong but I can't figure out what it is.
Thanks very much for your help,
AV
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