Hello everyone,
I am just getting started analyzing some 454 data, and I have downloaded a bunch of tools. Can you please offer some advice for newcomer to the field who is just getting started. Here are the things that I want to be able to do:
1. Determine the quality of the sequence run: Is there any program that will give an overview of the quality of the reads in an .sff file?
2. Clip adapter sequences that might be there from a titanium 454 run and bin the large file into 10 smaller ones by barcode.
3. Clip the barcodes.
4. Assemble contigs.
I am working with a very complex sample and it looks like I am getting a lot of small contigs that are really divergent from any known reference sequences. Can anyone offer advice on assembly difficult sequences!
Thank you,
viralnerd
I am just getting started analyzing some 454 data, and I have downloaded a bunch of tools. Can you please offer some advice for newcomer to the field who is just getting started. Here are the things that I want to be able to do:
1. Determine the quality of the sequence run: Is there any program that will give an overview of the quality of the reads in an .sff file?
2. Clip adapter sequences that might be there from a titanium 454 run and bin the large file into 10 smaller ones by barcode.
3. Clip the barcodes.
4. Assemble contigs.
I am working with a very complex sample and it looks like I am getting a lot of small contigs that are really divergent from any known reference sequences. Can anyone offer advice on assembly difficult sequences!
Thank you,
viralnerd
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