Hari Sadasivan
Hari Sadasivan
Have been using Graphmap for my course project and have observed that the function "ConvertDataFormat" has an option to convert ascii index to a 2bit index and saw your test1.h...
Could you please let me know how to build index for say 10 bacterial genomes in graphmap? I understand how it is to be done for 1 genome.
Is graphmap better than Minimap2 for ONT 1D R9.4.1 reads?
I think traditionally the real-time chunk size is 4000 samples(1 sec). But I'm doing some offline testing. Say all my input reads have > 2000 raw trimmed squiggle samples and...
hello, @SaurabhKalikar @lh3 after installing and adding rustc binary folder to path, getting the error "issue: sh:1 ./scripts/build-rmi.linear_spline.linear.sh was not found" when I try to run build_rmi.sh.
[fast-contrib]: issue: learnt index generation does not run minimap2 with avx512 define by default
Hello, ./build_rmi.sh test/MT-human.fa map-ont does not run mm2 with avx512 by default. I understood this from the print statements "Using default hash lookup" from main.c. Is there a reason why...
Hello Dr. Li @lh3 , Do you think optimizing the chaining function mm_chain_dp with the forward computation transformation from will maintain bit-exact results given you calculate st dynamically and Guo...
Hi, I'm working on a modified dataset with a noise profile different from standard ONT and used LAST-TRAIN to train scoring parameters to map 90% reads. Directly applying these indel...
Given the emergence of ML based methods for variant and methylation calling, what is nanopolish "the best" for now-a-days? Who uses nanopolish and when? Please dont get me wrong, I...
I'm getting the following warning when I do krona on centrifuge's kraken style report after cutting the first and third columns, and hence my results are poor. Warning : The...