Risultati di ricerca
Here, we present shinyCurves, a shiny web application created to analyse multisource qPCR amplification data from independent multi-plate format. Furthermore, our automated system allows the classification of the results as well as the plot of both amplification and melting curves.
- Melting Curves
- Calling Analysis
- Amplification Curves
In the dye experiments, shinyCurves allows users to plot melting curves to exclude from the final calling those samples lacking reliable and unique melting temperature (Tm) peaks. These plots are generated using the meltcurve function from the ‘qpcR’ package in R . As a result, users can download a table including only those plate wells that contai...
After uploading the input data, users are allowed to fine-tune a series of parameters that will be used to classify samples as Positive, Negative or Undetermined. In general, two types of calling criteria are allowed, namely, the Ct value of the analyzed viral gene(s) (compulsory) and the estimated viral RNA copy number (optional). A human endogeno...
After performing the calling analysis in probe experiments, shinyCurves allows to plot General Amplification Curves including all the samples, as well as individual Amplification Curves of samples classified as Undetermined. Each Undetermined sample is plotted independently, together with those with a final calling. Upon visual inspection of Undete...
- S Olaechea-Lázaro, I García-Santisteban, J R Pineda, I Badiola, S Alonso, Jose Ramon Bilbao, Nora Fe...
- 2021
we present shinyCurves, a Shiny-based, user-friendly, exible, integrative, non-proprie-tary and free application that is able to: 1 Process qRT-PCR raw amplication data obtained with either uorescent probes or intercalating dyes, from dierent plate formats and qRT-PCR systems, including those recommended by the main public health agencies;
16 ott 2020 · Abstract. Summary Quantitative, reverse transcription polymerase chain reaction (qRT-PCR) has been the gold-standard tool for viral detection during the SARS-CoV-2 pandemic.
- Sonia Olaechea-Lazaro, Iraia Garcia-Santisteban, Jose Ramon Pineda, Iker Badiola, Santos Alonso, Jos...
- 2020
3 ott 2021 · An overview example of two shinyCurves analyses (intercalating dye and fluorescent probe, in green and pink, respectively). Both analyses can be performed using qRT-PCR results from BioRad CFX or Applied Biosystems Quant Studio platforms, among others.
- S Olaechea-Lázaro, I García-Santisteban, J R Pineda, I Badiola, S Alonso, Jose Ramon Bilbao, Nora Fe...
- 10.1186/s12859-021-04392-1
- 2021
- BMC Bioinformatics. 2021; 22: 476.
16 ott 2020 · Here, we present shinyCurves, a shiny web application created to analyse multisource qPCR amplification data from independent multi-plate format.
14 ott 2020 · Herein we present shinyCurves, a Shiny-based, user-friendly application that is able to process qRT-PCR amplification raw data obtained with either fluorescent probes or intercalating dyes in different qRT-PCR systems.
