Umap

Newmap is intended to be a simple, faster, and easy to use replacement for the original Umap project.

Umap dataset differences

There are some minor differences between the file output generated by Umap and newmap. Newmap aims to be an improvement in both usefulness and accuracy.

unique.uint8

There are minor differences between the unique.uint8 datasets that would have been generated from Umap, and the current datasets generated from newmap.

In most cases, only the following k-mer lengths were in Umap unique files: 24,36,50,100,150,200

Mappability files

There are some more significant differences in the mappability files generated:

1. Regions with 0-valued mappability for both single-read and multi-read are now included as 0 values in the resulting files. Previously in Umap, these regions were simply omitted.

2. The mappability files generated by newmap are different from the original Umap by 1 bp on the start coordinate due to an off-by-one bug for both multi-read mappability and single-read mappability in Umap.