Hi,
I am having thousands scaffold sequences which were assembled by other people through NGS. Now, I am asked to assemble a genome using these sequences (They do have some overlaps and can be assembled). I searched forum and found many assemblers were NGS data orientated. However, I don't have the very beginning short reads data at hand. I'd like to know:
If there is any tool or software which can do the alignment between long scaffold seq and the reference genome directly? Since the length of scaffold sequence is much longer than NGS data, I can not get a good tool to work on it. And I also want to know if there is a software which can export the final consensus sequences after aligning.
Thanks very much for helping.
alice
I am having thousands scaffold sequences which were assembled by other people through NGS. Now, I am asked to assemble a genome using these sequences (They do have some overlaps and can be assembled). I searched forum and found many assemblers were NGS data orientated. However, I don't have the very beginning short reads data at hand. I'd like to know:
If there is any tool or software which can do the alignment between long scaffold seq and the reference genome directly? Since the length of scaffold sequence is much longer than NGS data, I can not get a good tool to work on it. And I also want to know if there is a software which can export the final consensus sequences after aligning.
Thanks very much for helping.
alice
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