Last updated: 2020-01-26
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Knit directory: peco-paper/
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| File | Version | Author | Date | Message |
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| Rmd | 7ab2cab | jhsiao999 | 2020-01-26 | updates |
| html | f468a43 | jhsiao999 | 2020-01-23 | Build site. |
| Rmd | 86d7297 | jhsiao999 | 2020-01-23 | update link to output-raw-2-final.R |
| html | 99d0556 | jhsiao999 | 2020-01-23 | Build site. |
| Rmd | 39f5a01 | jhsiao999 | 2020-01-23 | data processing steps |
| html | bf95f68 | jhsiao999 | 2019-09-13 | Build site. |
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| Rmd | 60e3281 | jhsiao999 | 2019-09-13 | wflow_publish(c(“analysis/index.Rmd”, “analysis/access_data.Rmd”, “analysis/license.Rmd”, |
Here are some useful links for how we processed our data.
Assess potential C1 batch effects in sequencing depth and read to molecule conversion rate.
Identify high quality samples using sample quality metrics, such as total number of mapped reads, ERCC percentages, etc.
Use Principal Component Analysis to examined potential sources of gene expression variation.
R version 3.5.1 (2018-07-02)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Scientific Linux 7.4 (Nitrogen)
Matrix products: default
BLAS/LAPACK: /software/openblas-0.2.19-el7-x86_64/lib/libopenblas_haswellp-r0.2.19.so
locale:
[1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
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[5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
[7] LC_PAPER=en_US.UTF-8 LC_NAME=C
[9] LC_ADDRESS=C LC_TELEPHONE=C
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
loaded via a namespace (and not attached):
[1] workflowr_1.6.0 Rcpp_1.0.3 digest_0.6.20 later_0.7.5
[5] rprojroot_1.3-2 R6_2.4.0 backports_1.1.2 git2r_0.26.1
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