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Recently, U.S. Food and Drug Administration, National Institute of Standards and Technology and Illumina [researchers defined highly reproducible regions (H.R.R.s)](https://genomebiology.biomedcentral…
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I have used the following options :
subcommand：
- segment --drop-low-coverage --drop-outliers
- call -filer ci ,sem ,ampdel,cn
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Good afternoon! I recently found your publication on MosaicHunter and would really love to use it. I was wondering, whether it would be possible to use MosaicHunter on total RNAseq data (TruSeq Stran…
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I have identified an important frameshift variant in TP53 using whole genome DNA sequencing and Strelka2 variant calling and Bowtie2 mapping. I wanted to see if it was identified in matched RNA sequen…
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I read your code of map-sr mode, I found that you used pybedtools and pandas to process the bam2bed file and found split and discordant reads in it. So if I have a very big data, It may cause crash !
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https://www.nature.com/articles/s41591-019-0582-4
Please keep this checklist for curation of a new study.
- [ ] [create a issue on datahub](https://github.com/cBioPortal/datahub/issues/new) befo…
jjgao updated
2 years ago
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Ideally, we should account for WGD (baseline is 4 copies) when analyzing hyperploid tumors (e.g. TNBC5), which should lead to better model fit and prediction stability
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I have a whole genome em-seq methylation library with dual indexes as well as methylated UMI's at the beginning of each R1 and R2. These are from Twist and were used to make EM-seq libraries. I am not…
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For CLE, ingest will compose of two steps.
1. ~~Trim a CSV ingest file down to only samples listed that do not currently exists.~~
2. Do the actual ingest with the newly created trimmed-down list.
T…