Mercurial > repos > mingchen0919 > rmarkdown_fastqc_site

annotate index.Rmd @ 11:507eec497730 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
update fastqc site
author mingchen0919
date Tue, 07 Nov 2017 16:52:24 -0500
parents d732d4526c6d
children a6f8382f852c
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
1 ---
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
2 title: "FastQC Report"
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
3 output: html_document
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
4 ---
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
5
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
6 ```{r setup, include=FALSE, warning=FALSE, message=FALSE}
11
507eec497730 update fastqc site
mingchen0919
parents: 0
diff changeset
7 knitr::opts_chunk$set(echo = TRUE, error = TRUE)
0
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
8 ```
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
9
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
10
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
11
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
12 ## References
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
13
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
14 * Andrews, Simon. "FastQC: a quality control tool for high throughput sequence data." (2010): 175-176.
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
15 * Goecks, Jeremy, Anton Nekrutenko, and James Taylor. "Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences." Genome biology 11.8 (2010): R86.
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
16 * Afgan, Enis, et al. "The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2016 update." Nucleic acids research (2016): gkw343.
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
17 * Highcharts. https://www.highcharts.com/. (access by May 26, 2017).
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
18 * R Core Team (2017). R: A language and environment for statistical computing. R Foundation for Statistical Computing, Vienna, Austria. URL https://www.R-project.org/.
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
19 * Joshua Kunst (2017). highcharter: A Wrapper for the 'Highcharts' Library. R package version 0.5.0. https://CRAN.R-project.org/package=highcharter
d732d4526c6d planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_fastqc_site commit ddb1f6aca7619aea2e660b1729367841b56ba4c9-dirty
mingchen0919
parents:
diff changeset
20 * Carson Sievert, Chris Parmer, Toby Hocking, Scott Chamberlain, Karthik Ram, Marianne Corvellec and Pedro Despouy (2017). plotly: Create Interactive Web Graphics via 'plotly.js'. R package version 4.6.0. https://CRAN.R-project.org/package=plotly