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editor preferred term: Clone-seq
textual definition: A massively-parallel site-directed mutagenesis approach leveraging next-generation sequencing to rapidly and cost-effectively generate a large num…
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Hello,
I'm interested in using this pipeline for pooled data. However, when we designed the study, we used the sub-pooling method recommended by CRISP (variant caller). So instead of having a singu…
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*Note:*
This task is too large for one ticket. Break this ticket up in to smaller tickets.
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Clone the current RNA NGS workflow chain (via YML file) for Toni's lab and adjust accordingly for…
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### Ask away!
Hi,
Thank you for providing this wonderful tool. I have run several nanopore sequencings with v2.0.3 wf-single-cell, and they all finished successfully. However, for one sample, I re…
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Hi,
I found a description in the tutorial:
"Our standard pipeline is to perform single-index 25x25 PE Illumina sequencing on up to 90 pooled samples on a single HiSeq 2500 flowcell, where each sampl…
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Hi - thanks for a nice tool! I have a quick question regarding the best approach for using cellsnp/vireo in our experimental setup:
We have generated data from 8 separate 10x Genomics single-cell rea…
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I am confused if `quant_reading` in the [introduction](https://benjjneb.github.io/decontam/vignettes/decontam_intro.html) is total DNA or DNA concentration in some units. If so are there any specific …
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i'm a newbie to sequencing analysis & working on a pooled sample project for the first time. i've found [this slide deck](https://yeamanlab.weebly.com/uploads/5/7/9/5/57959825/snp_calling_pipeline.pd…
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**Donor inference**
- [Vireo](https://genomebiology.biomedcentral.com/articles/10.1186/s13059-019-1865-2)
- [Souporcell](https://www.nature.com/articles/s41592-020-0820-1)
- [scsplit](https://…
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Lims Issue
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For definitions of headings below see [Basic Concepts](https://atlas.scilifelab.se/infrastructure/lims/basic_concepts/).
**Work Flow:** NovaSeq X v1
**Protocol:** No…