Jianshu_Zhao

Dear Robert, Can you please add MD:Z tag and also support for interleaved reads? Thanks, Jianshu

Question on compute the order MinHash based distance

1

Hi Otmar, I ran the probminhash test for order minhash performance and equivalence, output is like a histogram (sketch) but no actual distance computed for 2 sets to approximate edit...

Just to take a note here that we can have faster popcount than the scalar popcount from GCC compiler: http://0x80.pl/notesen/2019-01-29-simd-count-byte.html#gcc-vectorization We may need to do it to have SIMD version,...

fastq format foward only or interleaved fastq?

1

Dear author, I want to ask what is the default fastq file, only foward reads or reverse reads or interleaved reads? Thanks, Jianshu

Hell RDP team, I noticed that v2.14 is already on source forge but this GitHub channel which is the source for the bioconda channel has not been updated yet. Can...

Support for MacOS(clang)

1

Clang does support openmp but I got the below error when compiling using clang-10: Build Ktrim In file included from ktrim.cpp:18: ./util.h:35:2: warning: 'register' storage class specifier is deprecated and...

Hello petal-cluster team, I noticed that there is a new idea to parallel HDBSCAN here: https://dl.acm.org/doi/abs/10.1145/3448016.3457296 Any possibility to also implement this one. Thanks, Jianshu

Hello mcorr team, I am wondering for the metagenomic case, whether the coverage of the target genome affected the final c estimate. I can see that the simulation use 5X...

Hi team, Is that possible to add support for M series chip? that is ARM support. Thanks, Jianshu

help info for use as a library

6

Hello Jim, Is that possible that a detailed function of comparing 2 genomes using skani can be added to readme so that when users want to rely on skani as...