bifrost
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pmelsted
Bifrost: Highly parallel construction and indexing of colored and compacted de Bruijn graphs
I just took a look at the GFA output and noticed that, unlike tools such as seqwish, Bifrost does not output the paths corresponding to each node. Is it possible...
It would be great if we can dump the color file into a text format or something easier to parse so we can analyze the graph.
Hi, quick question: what would be optimal way to get a list of neighbors of a node, restricting to neighbors associated with one or more given colors? I have an...
Warning
Hi Friends, Could you tell me how I fix this warning? warning: ‘BlockedBloomFilter’ has a field ‘BlockedBloomFilter::fast_div_’ whose type uses the anonymous namespace [-Wsubobject-linkage] class BlockedBloomFilter { Thanks, Lucas B....
Consider the following input reference file: a.fa ```txt >a CGCGG ``` Using the command line `Bifrost build -k 4 -r a.fa -o a` on the current master of this repo...
Currently, Bifrost colors the graph based on the input files because Bifrost was originally designed with short read data in mind (one color = one set of short reads from...
Would it be possible to add a "
The class CompactedDBG has a function `add` to add sequence to the graph (and automatically turn it into unitigs). This function has not been adapted for ColoredCDBG, and it seems...
