Justin Chu
Justin Chu
It seems there is a limit to use a `uint32_t` for the count parameter of the `PackedArray_create()` function. Do you foresee any major issues modifying the code downstream to allow...
There is a minor compatibility issue regarding the `cp` command used. Changing the `-f` parameter location might be all that is needed.
Usually the output for this will be messy, but users should have the option of adding helpful labels in the plot
incongruent links would be outliers compared to the true position (chromosome position & distance from in link) of the link. This could be done to highlight where misassemblies occur.
When comparing assembles that are both fragmented, some reference seqeunces are likely not well ordered, leading to the appearance of incongurent linkts. It may be possible to iteratively place the...
I currently filter MAPQ < 50 and any alignments with an XA tag to minimize noise in the plot. These filtering options should be an option since things like repeat...
Some contigs will be duplicated or can be placed in a graph. It would be nice somehow to place contigs as a secondary match in that location and display it...
For debugging on different systems and testing out the code there should I should include a small demo on a reasonable sided genome. File sizes could be an issue. Should...
Position of scaffold is determined by the median alignment position of scaffold along the sequence. This information may be useful for other applications.
Other than manually editing the config files, removal of chr names is not possible. This feature will be useful if using a draft or fragmented reference seqeunce.