With so many softwares, the environment of these tools can be loaded into their own accounts through the functions of modules and submitted for calculation. We use the commercial NGS assembly and comparison tool Sentieon to demonstrate the whole process:

1. Get a VPN account for supercomputing and log in with the Hillstone VPN tool:

You can also write an execution script according to the actual calculation needs, and then submit it to the calculation node for operation with yhbatch. For job submission steps of yhbatch, please refer to:

Sentieon software function

-This software can replace the conventional analysis tools (gatk4/gatk3.7/Picard2.9.0/bwa0.7.15-r1140). At the same time, it has the following outstanding features:

-Parallel computing speeds up10–50 times. It takes only half an hour to analyze exons by single-node test on Tianhe-2, and 8 hours for 30X whole genome.

-There is no down-sampling in high-depth sequencing regions (GATK will down-sample regions with a depth greater than 500), which is especially important for high-depth sequencing, especially for low allele frequency variation. A typical application is the analysis of ctDNA sequencing results.

-There is no difference between runs: strict software and algorithm engineering implementation eliminates the problem that the results in the original GATK software are not repeatable due to thread dependence, random sampling and other reasons.

-Joint call of a large number of WGS: The software can realize one-time joint call of up to 65,438+10,000 WGS data without intermediate steps, and this function has been widely used by software customers.

-TNscope won the first place in the dream challenge, and the self-designed algorithm product can not only change the call structure, but also give higher accuracy for snv and indel.

For more information and details, please refer to Sentieon Chinese website.