Hi,
I need to remove all 'N' strings in a fastq file. I have paired end files and there are N strings at the end of some reads of variable length (both the reads and the N strings are of variable length). I can't find any tool to do this. Trimmomatic will remove bases based on their quality score. Fastx_trimmer will keep 'x' first bases.
Anyone has a script for this or knows of a tool? It is important that the tool deals with paired files and keeps the pairs 'alive' after trimming in both files.
ps: I tried to install nesoni but I am uncapable to do this in the server without root permisions and an older python version.
Thanx
Illinu
I need to remove all 'N' strings in a fastq file. I have paired end files and there are N strings at the end of some reads of variable length (both the reads and the N strings are of variable length). I can't find any tool to do this. Trimmomatic will remove bases based on their quality score. Fastx_trimmer will keep 'x' first bases.
Anyone has a script for this or knows of a tool? It is important that the tool deals with paired files and keeps the pairs 'alive' after trimming in both files.
ps: I tried to install nesoni but I am uncapable to do this in the server without root permisions and an older python version.
Thanx
Illinu
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