User: rgc255

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rgc25510
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Posts by rgc255

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Comment: C: Merging BWT indices for BWA
... I agree, I haven't found a program yet that can perform this type of bwt conversion and I've been looking for quite a while. I think I may have to write a program to do it, but I'd rather not if a program already exists. ...
written 9 months ago by rgc25510
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Comment: C: Merging BWT indices for BWA
... I think it must be possible. I know that you can merge bwt files, but I just don't know how to convert those bwt files to the format required by bwa. There's a post on the wiki for the msbwt program that explains how to convert bwt indexes from ropebwt2 format to msbwt format (https://github.com/ho ...
written 9 months ago by rgc25510
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Comment: C: Merging BWT indices for BWA
... Good question. We get the bacterial genomes in batches, so we don't get them all at once. We handle thousands of samples a year and it's not possible to predict beforehand what the bacterial genomes look like until we see them. I think it may save time and money if we can merge BWTs rather than c ...
written 9 months ago by rgc25510
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Merging BWT indices for BWA
... Is it possible to merge two indexes created using BWA version 0.7.17 (https://github.com/lh3/bwa)? I need to create many BWA index files that included a large genome and a variable smaller bacterial genome. I need to do this many times as part of a pipeline and it takes a about 40 minutes, even us ...
merge bwt read aligner bwa written 9 months ago by rgc25510

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