Monopogen
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KChen-lab
SNV calling from single cell sequencing
This is a suggestion, when I was running Monopogen on a large dataset, outofmemory error occurs. I fixed it by edit the `-Xmx20g` params of cmd3 and cmd5. I suggest...
Hello Is there a way to use Monopogen to detect gremlin SNVs on a per cell basis in the same way that somatic snvs are called? Thank you!
Hi! Dr. Dou, Thank you for developing this great software Monopogen for both germline and somatic SNVs detection in single-cell sequencing data. We found it very efficient in somatic mutations...
Error in line 97 with extra command on that line that is moved to line 98
* use conda environment to fix versions of dependencies * improve test script portability and remove hardcoded path
I have two questions about the sample `test/bam.lst` which has the following: ``` ID1,/rsrch3/scratch/bcb/jdou1/scAncestry/Monopogen/example/A.bam ID2,/rsrch3/scratch/bcb/jdou1/scAncestry/Monopogen/example/B.bam ``` 1. What does col1 (`ID1,ID2`) of bam.lst indicate? 2. Suppose I have the ability...
Hi Monopogen Development Team / Community System Details: * Operating System: macOS [Sequoia 15.1.1] * Architecture: [Apple Silicon M1] * Key Tools: samtools and bcftools installed via Homebrew (samtools version...
Hi, Thanks for creating this great tool. Can monopogen be used for long-read sequencing? Given that long read throughput generally is lower compared to short reads, and that monopogen is...
Hi, thank you for this amazing tool. I am wondering if i could leverage this for identifying single basepair mutations from the mouse data. I have wildtype and mutated scrna...
Hi, Thank you for developing this great tool! I have a question regarding calling X chromosomal SNPs in female samples. Given that X chromosome inactivation occurs randomly, single-cell data should...
