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Create data visualization/output validating accuracy of short-reads simulated (using wgsim) from long reads, versus "ground-truth" short-read .vcf files.

Status: Open.

#9 In dpuiu/MitoHPC2;

· kbonsu opened on Apr 16, 2026

Design overview graphic/cartoon for MitoHPC2 Github landing/publication.

Status: Open.

#8 In dpuiu/MitoHPC2;

· kbonsu opened on Apr 16, 2026

Perform analysis of ONT/PacBio HiFi sequencing data from PCR of HEK293T-COX3 mutant allelic series samples (using stable copy of MitoHPC2)

Status: Open.

#7 In dpuiu/MitoHPC2;

· kbonsu opened on Apr 16, 2026

Update Docker file (sr only)

Status: Open.

#6 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026

Update init/install scripts; wgs vs rna ; sr vs lr (ont,pacbio)

Status: Open.

#5 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026

RNA-Seq: Test whether performing deduplication first is better than performing subsampling first for maintaining more uniform coverage and improving SNP calling

Status: Open.

#4 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026

Identify RNA-Seq/DNA matched samples from same patient to test

Status: Open.

#3 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026

Check DeepSomatic/Clairs-TO docker sizes; compare to singularity images

Status: Open.

#2 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026

Update DeepSomatic from v1.9.0 to v1.10.0; test

Status: Open.

#1 In dpuiu/MitoHPC2;

· dpuiu opened on Apr 9, 2026