Last updated: 2019-01-01

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• ✔ R Markdown file: up-to-date

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• ✔ Repository version: 5c937b2

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  Ignored files:
      Ignored:    code/.ipynb_checkpoints/
      Ignored:    output/10x-180504
      Ignored:    output/10x-180504-aligned
      Ignored:    output/10x-180504-aligned-metageneplot
      Ignored:    output/10x-180504-beforeQC
      Ignored:    output/10x-180504-beforeqc
      Ignored:    output/10x-180504-cca-discardedcells
      Ignored:    output/10x-180504-ccregout
      Ignored:    output/10x-180504-ccregout-aligned
      Ignored:    output/10x-180504-ccregout-cca-discardedcells
      Ignored:    output/10x-180831
      Ignored:    output/10x-180831-T1T2T3
      Ignored:    output/10x-180831-T4T5
      Ignored:    output/10x-180831-beforeqc
      Ignored:    output/10x-180831-notcleaned
      Ignored:    output/monocle/
  
  Untracked files:
      Untracked:  code/mixture_cluster_gsea.R
      Untracked:  tables/10x-180504-stressed-cells-analysis.txt
      Untracked:  tables/GSEA_mixture-cluster.txt
      Untracked:  tables/Revigo_input_mixture-cluster.txt
      Untracked:  tables/Revigo_mixture-cluster.csv
      Untracked:  tables/Revigo_mixture-cluster_cleaned.txt
  
  Unstaged changes:
      Modified:   analysis/10x-180504-general-analysis.Rmd
      Modified:   analysis/10x-180831-general-analysis.Rmd
      Modified:   plots/180504_mixture.pdf
  
  

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File	Version	Author	Date	Message
Rmd	5c937b2	PytrikFolkertsma	2019-01-01	wflow_publish(c(“analysis/index.Rmd”))
Rmd	1ee9efb	PytrikFolkertsma	2019-01-01	updated notebooks
html	12351bf	PytrikFolkertsma	2019-01-01	Build site.
Rmd	b88a9ba	PytrikFolkertsma	2019-01-01	wflow_publish(c(“analysis/10x-180504-monocle.Rmd”, “analysis/index.Rmd”))
Rmd	3be3c3d	PytrikFolkertsma	2018-12-12	updates
html	092644e	PytrikFolkertsma	2018-11-11	Build site.
Rmd	f649370	PytrikFolkertsma	2018-11-11	wflow_publish(c(“analysis/index.Rmd”))
html	0652285	PytrikFolkertsma	2018-11-08	Build site.
Rmd	0870772	PytrikFolkertsma	2018-11-08	wflow_publish(c(“analysis/index.Rmd”))
html	19d224c	PytrikFolkertsma	2018-11-08	Build site.
Rmd	a40cd08	PytrikFolkertsma	2018-11-08	wflow_publish(c(“analysis/index.Rmd”))
html	072f174	PytrikFolkertsma	2018-11-08	Build site.
html	6e36947	PytrikFolkertsma	2018-11-07	Build site.
html	8c816d4	PytrikFolkertsma	2018-11-07	Build site.
html	4b12f43	PytrikFolkertsma	2018-11-05	Build site.
Rmd	f6e9077	PytrikFolkertsma	2018-11-05	wflow_publish(c(“analysis/10x-180504-beforeQC.Rmd”, “analysis/index.Rmd”))
html	9e51a0a	PytrikFolkertsma	2018-11-02	Build site.
html	cc9ed00	PytrikFolkertsma	2018-11-02	Build site.
Rmd	d7744be	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	0eee1c4	PytrikFolkertsma	2018-11-02	Build site.
Rmd	bbcb1c5	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	4f5e908	PytrikFolkertsma	2018-11-02	Build site.
Rmd	b2747c4	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	2b95cbd	PytrikFolkertsma	2018-11-02	Build site.
Rmd	a70776e	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	d6ccbf9	PytrikFolkertsma	2018-11-02	Build site.
Rmd	5ef5a54	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	77f0cd0	PytrikFolkertsma	2018-11-02	Build site.
Rmd	ad3b515	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	b20b10d	PytrikFolkertsma	2018-11-02	Build site.
Rmd	7f1e2a3	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	a58d589	PytrikFolkertsma	2018-11-02	Build site.
Rmd	9faddbb	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	f378262	PytrikFolkertsma	2018-11-02	Build site.
html	4d75489	PytrikFolkertsma	2018-11-02	Build site.
Rmd	032862e	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	ca069c3	PytrikFolkertsma	2018-11-02	notebooks + index
html	cb4228f	PytrikFolkertsma	2018-11-02	Build site.
Rmd	e39c768	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	a4453ec	PytrikFolkertsma	2018-11-02	Build site.
Rmd	52e9177	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	b5866be	PytrikFolkertsma	2018-11-02	Build site.
Rmd	42be16c	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	17b0321	PytrikFolkertsma	2018-11-02	Build site.
Rmd	20adbe0	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	91f2c9c	PytrikFolkertsma	2018-11-02	Build site.
Rmd	f8fe591	PytrikFolkertsma	2018-11-02	wflow_publish(c(“analysis/index.Rmd”))
html	eaa7e4a	PytrikFolkertsma	2018-11-02	Build site.
Rmd	120215c	PytrikFolkertsma	2018-11-02	general analysis + alignment
html	d810265	PytrikFolkertsma	2018-10-31	Build site.
html	57c44d6	PytrikFolkertsma	2018-10-31	Build site.
html	1f7e0da	PytrikFolkertsma	2018-10-30	Build site.
html	3395a74	PytrikFolkertsma	2018-10-26	first commit
Rmd	cf98ea8	PytrikFolkertsma	2018-10-26	Start workflowr project.

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Notebooks for 10x-180504 analysis:

1. Before QC
2. General analysis
3. Alignment
4. Differentially expressed genes between depots
5. Monocle analysis
6. Velocyto analysis
7. Scmap analysis
8. Mixture cluster

Notebooks for 10x-180831 analysis:

1. First data inspection
2. General analysis
3. Monocle analysis
4. Velocyto analysis

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This reproducible R Markdown analysis was created with workflowr 1.1.1

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