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The new Zymo Mock Community samples (cleaned via the max tip protocol) did not show up in the demultiplexed reads. They were either not added, or somehow the demux key is wrong for them. I believe the results are inconclusive and our best approach is to pool NS5 as normal and use it as the data set to decide on pooling standards moving forward. There is at least a plate effect when comparing the connection between reads and qPCR quantity (molar concentration). We have 7 partial plates with a total of 409 samples that used the tip conservative method and 18 full plates (1728) that were cleaned without tip reuse on the 96 channel pipette. I would suggest using 288 from each category and repeating this experiment doing single qPCRs for each plate and the sequencing data from NS5. |
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