[galaxy-user] finding open reading frames and corresponding genes

Hi I am sequencing a bacterial genome and have assembled my Illumina reads (40 bp single) using bowtie with a reference genome. This generated a sam file. I would like to obtain a listing of the open reading frames from the bacterial genome and the corresponding genes that they are most similar

[galaxy-user] downloading reference sequences and other questions

Hi I have a few questions 1. I am trying to use Bowtie to map my data using a reference genome. the genome is available on Galaxy (Escherichia coli DH10B (20079)). Is there a way that I can download the file in fasta format to use as a reference in Tablet? I can import the SAM output into Tablet

[galaxy-user] program for filtering and trimming data

Hi Is there an stand alone ( ie not a component of Bowtie etc ) program in galaxy that can filter or trim fastq data? thanks ___ The Galaxy User list should be used for the discussion of Galaxy analysis and other features on the public