Hello
I am currently doing an intership in bioinformatics and I am looking for a good pipeline to process abi SOLiD data coming from the NCBI sra-data repository.
The eventual goal is to perform peakcalling on an alignment coming from a colorspace fastq and a plain fasta reference genome.
I'm having trouble finding a good (working) tool to align the colorspace fastq and the fasta genome. Does anyone have any tips?
I already know it's not a good idea to convert colorspace to basespace, so I'm looking for alternatives. Bowtie and BWA don't seem to work for me...
much thanks!
masme
I am currently doing an intership in bioinformatics and I am looking for a good pipeline to process abi SOLiD data coming from the NCBI sra-data repository.
The eventual goal is to perform peakcalling on an alignment coming from a colorspace fastq and a plain fasta reference genome.
I'm having trouble finding a good (working) tool to align the colorspace fastq and the fasta genome. Does anyone have any tips?
I already know it's not a good idea to convert colorspace to basespace, so I'm looking for alternatives. Bowtie and BWA don't seem to work for me...
much thanks!
masme
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