Justin Chu
Justin Chu
My code only needs to work in a Linux environment using `gcc` and maybe `clang`. I'll give a shot and let you know if I have any problems. Thanks.
So far it seems to be okay. I basically changed a bunch of `uint32_t` to `uint64_t` https://github.com/JustinChu/PackedArray/commit/bdc91637edb210950a668f280fcabf7a5788cd57. I tested in a few informal cases with no problems so far. I...
Sorry for the late reply. Adding the query names is a common feature request so it might be time I try to add it in the next week or so....
Hi, I'm not entirely sure what you mean. What do you mean by whole scaffolds? Some scaffolds will be omitted by default if they are too small. You can include...
Is this 14Mbp alignment the only alignment to the scaffold? Are you sure there aren't more alignments later on? The `prefix-agp.bed` is not the final alignment result considered in the...
Additionally, an option to output seqOrder of non-rendered scaffolds could be useful. Could call file: seqOrderComplete
Stale issue. Closing.
Sorry if this reply is too late. To create wider links you could try to change the parameters `minBundleSize` (decrease) and `maxGap` (increase) which will allow larger gaps when between...
Stale issue. Closing.