Commits · cc1e20b305af3ae2ece31a1223d6a4cbbb162827 · BioCellGen-public / MIG_2019_scRNAseq-workshop

Oct 20, 2017
- Update LICENSE · cc1e20b3
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 484ab8999ce3a858248d16c420cd4fb7850042e2
  cc1e20b3
- hopefully final changes in chapter 15! update SC3 chapter · e854bcbe
  wikiselev authored 7 years ago
  
  Former-commit-id: 8e0a8bfebf4bc9c5b802894fe6a62f0a0bf57130
  e854bcbe
- update chapter 15 · 3e5d7f46
  wikiselev authored 7 years ago
  
  Former-commit-id: 0c4f87941cfb637c5b09f4fe7d69847fc13e2f50
  3e5d7f46
Oct 19, 2017
- fix chapter 15 · e4c0055a
  wikiselev authored 7 years ago
  
  Former-commit-id: 656eb1a59ef3b01a25735d792df8343687f47006
  e4c0055a
- fix chapter 14; add live broadcast announcement · 703b8424
  wikiselev authored 7 years ago
  
  Former-commit-id: 679b8699f0f01065d06a0d7d6debc14f154c2d23
  703b8424
Oct 18, 2017
- update clustering chapters · f6a697e8
  wikiselev authored 7 years ago
  
  Former-commit-id: 078f80134fadb87d2923dbee47210ba7c5f95c89
  f6a697e8
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · b630dd3d
  wikiselev authored 7 years ago
  
  Former-commit-id: 4ea8a087ffcb4979c98722e056f0344a19f81924
  b630dd3d
- update clustering chapters · 609d3a73
  wikiselev authored 7 years ago
  
  Former-commit-id: f80fd58c85372a5ba88f90ba682634537c450672
  609d3a73
- 15-remove-confounders - edit text & add exercises. · c0a0d551
  tallulandrews authored 7 years ago
  
  Former-commit-id: 607767c5770f975aa110c2f1603bbb1efe9fe6b6
  c0a0d551
- Confounders (15) done up to DE stuff. · 452e6d7e
  tallulandrews authored 7 years ago
  
  Should we remove the DE stuff from this chapter as it is getting ridiculously long. Former-commit-id: 290a16791375873247a19e15442714f02da1e508
  452e6d7e
- Fix upto mnnCorrect · 91c4dc31
  tallulandrews authored 7 years ago
  
  Former-commit-id: ba46fce5b30468208fc5f3861357b1d84eb95deb
  91c4dc31
Oct 17, 2017
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · 05fb2365
  wikiselev authored 7 years ago
  
  Former-commit-id: 9ff313c6436131472f04f4e69c635aebe79d60cf
  05fb2365
- go up to chapter 16 · 3cd45c34
  wikiselev authored 7 years ago
  
  Former-commit-id: ee38e6de4175432d4650b9d39615d03fc69b4fd3
  3cd45c34
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · ecd07fb0
  wikiselev authored 7 years ago
  
  Former-commit-id: 9ae9331bb8c6c8b01d80d00709e6f409d298b1b5
  ecd07fb0
- done until chapter 13 · 84447a65
  wikiselev authored 7 years ago
  
  Former-commit-id: 3443be6399a1a8e4bd5b75f3ac25ce9b317d390c
  84447a65
- update first chapters; add beachmat · 1fe0a077
  wikiselev authored 7 years ago
  
  Former-commit-id: c5493da72277aaa5fac26d3559e380dcd1f39c36
  1fe0a077
Oct 16, 2017

add sessionInfo to chapter 7 · 240db23a
wikiselev authored 7 years ago
```
Former-commit-id: f1fab05e451f39c0fde5a963148fa616b20b26a0
```
240db23a
add Rhdf5lib · 561d37c6
wikiselev authored 7 years ago
```
Former-commit-id: c9999bd02a841369380cbc8a3f8aa787be21fc6d
```
561d37c6

wikiselev authored 7 years ago

Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course

# Conflicts:
#	tung/reads.rds
#	tung/umi.rds


Former-commit-id: 8c1523d244f71e925fcc33945138b450720a9914

87989ee2

start SingleCellExperiment integration · b8382e8e
wikiselev authored 7 years ago
```
Former-commit-id: d4128bfba4dcf641bd41e5474c0cb9edeab9413e
```
b8382e8e

Oct 11, 2017

Batch Correction - Draft 1 · 4d8fa9b6

tallulandrews authored 7 years ago

Pull together bits of code relevant to this chapter - probably doesn't work at the moment.

Former-commit-id: 516df8f1f7e26bd52e5aef144e29a82aed969892

4d8fa9b6

Sep 18, 2017
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · 389fc439
  wikiselev authored 7 years ago
  
  Former-commit-id: fff05f8e6a6734000a77be3792ef8b01c16acef2
  389fc439
- Update M3Drop call & add require("lle") · 8cf34e5b
  tallulandrews authored 7 years ago
  
  Former-commit-id: 96455f612627ec3a4d5742f8e01d024134f795dd
  8cf34e5b
- new version of M3Drop · 94a70955
  wikiselev authored 7 years ago
  
  Former-commit-id: e7c182c66b51c69203ca138a8bf7292ab55eb4f7
  94a70955
- Update 19-dropouts.Rmd · 630c0d9e
  tallulandrews authored 7 years ago
  
  Former-commit-id: 6969394a163bd13a28c89ff5c72fbd580b8a8df2
  630c0d9e
- Update 19-dropouts.Rmd · abb4fb05
  tallulandrews authored 7 years ago
  
  Former-commit-id: 0d5baf8f07845f1c0a1d6e80a04a81e31126f941
  abb4fb05
Sep 13, 2017
- Fix Errors · cd3582ca
  tallulandrews authored 7 years ago
  
  Former-commit-id: 6643ae84504a762a63fae148749f398a69e5b59c
  cd3582ca
Sep 11, 2017

Turn off Seurat to see if course will now update. · a3b75f01

tallulandrews authored 7 years ago

For now I'm happy to have the students run Seurat as an exercise using the provided code.

Former-commit-id: cf90c4dd472f631fca4cdaf16049a3862bfd2835

a3b75f01

Update 01-reqs.Rmd · a1684004

tallulandrews authored 7 years ago

Update M3Drop

Former-commit-id: 97807f7a7c7896c78277929aa5272276c8bee2cf

a1684004

Sep 06, 2017
- try to fix Seurat DLL error · b58f5085
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: e306b00dfb90356fc2fd37e2c78930e501f78651
  b58f5085
Sep 05, 2017
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · 76cf42bc
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 458088a5a5bd108a22af3d695dd767959d6ce9d0
  76cf42bc
- check new CRAN Seurat · 515c2dc7
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 8fa61577dc86bf0ea891bcf713d9b568ca94a46a
  515c2dc7
Jul 28, 2017

Update 19-dropouts.Rmd · 8919dad2

tallulandrews authored 7 years ago

Fix references

Former-commit-id: 5e249008281cbded4bbd1bcab207641dd1db91bb

8919dad2

Update 19-dropouts.Rmd · 680e50d5

tallulandrews authored 7 years ago

Requires current M3Drop from github not Bioconductor.

Former-commit-id: f70e717824a9bf524d5254c8e6472e0d726144ba

680e50d5

Update index.Rmd · 74e393dc
tallulandrews authored 7 years ago
```
Former-commit-id: 9e89af2d9abf8c1dc19614adf38b2d0fdd6b0253
```
74e393dc

May 12, 2017
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · 25d86450
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 953846d7bec38fa598e42f8fcbf78c24198d9cbb
  25d86450
- rm all docker stuff in the beginning of the build · 1e41d260
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 5065f624e4bf422a7599524c5dcb513526af6cb1
  1e41d260
May 09, 2017
- Merge branch 'master' of https://github.com/hemberg-lab/scRNA.seq.course · 0673749d
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 58180f39f0c70925cc543c2b32b2aae28a19eb3e
  0673749d
- fix the video link · 506c063c
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: c4e78b88312491a16ad8a61a545e1ee852440555
  506c063c
- update video; try to get back to docker caching · be0c1cd6
  Vladimir Kiselev authored 7 years ago
  
  Former-commit-id: 6b6b86786af0e421c1198ed7c25646037c0709dd
  be0c1cd6