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c8d17c0
Updated Stats jupyter notebooks and code
mhasoba Dec 2, 2018
1c67bce
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Dec 2, 2018
c0bec06
Updated Stats jupyter notebooks and code
mhasoba Dec 2, 2018
ed75b2f
Added back Martin Brazeau's C materials (to lectures directory)
mhasoba Dec 2, 2018
0315104
Updated lineat models-regression jupyter nb
mhasoba Dec 2, 2018
6845960
Add extra conda and bash tips to HPC Python nb
fwimp Dec 3, 2018
2feb619
Merge remote-tracking branch 'origin/master'
fwimp Dec 3, 2018
bf37672
Updated linear models-regression and anova jupyter nbs
mhasoba Dec 4, 2018
bc69316
Resolve minor 15-anova merge conflict
fwimp Dec 4, 2018
c038385
Clean up 15-anova
fwimp Dec 4, 2018
6bd2924
Clean up 16-MulExpl
fwimp Dec 4, 2018
17d1904
Add flowchart to 12-DataEx and fix numbering in 16 - MulExp
fwimp Dec 4, 2018
74c6031
comment out answer to 1
mbrazeau Dec 4, 2018
e0e578e
Clean up 17-MulExplInter after LaTeX conversion
fwimp Dec 4, 2018
22202f1
Clean up 18-ModelSimp after LaTeX conversion
fwimp Dec 4, 2018
a7f7def
Clean up 19-glm after LaTeX conversion
fwimp Dec 4, 2018
b396af1
Add navigation to nbs 17-19
fwimp Dec 4, 2018
806d71a
Change kernel for 19-glm to R
fwimp Dec 4, 2018
b42ec9e
Updated multiple stats jupyter nbs
mhasoba Dec 4, 2018
64084dc
Updated multiple anova jupter nb
mhasoba Dec 7, 2018
8519229
Updated stats jupter nbs
mhasoba Dec 7, 2018
c842df1
Updated stats jupter nbs
mhasoba Dec 7, 2018
caf3674
Updated stats jupter nbs
mhasoba Dec 7, 2018
4fdeff4
Updated stats jupter nbs and updated code directory
mhasoba Dec 9, 2018
9da34c9
Updated stats model simplification jupyter nb
mhasoba Dec 9, 2018
bbb63bb
Updated stats jupter nbs
mhasoba Dec 10, 2018
c2beb44
Updated stats jupter nbs
mhasoba Dec 10, 2018
d7e3663
Updated stats jupter nbs
mhasoba Dec 11, 2018
fbfdd28
Updated stats jupter nbs
mhasoba Dec 12, 2018
6acc342
Updated stats jupter nbs
mhasoba Dec 13, 2018
8e0a5a3
Updated stats jupter nbs
mhasoba Dec 13, 2018
607c6d0
Updated assessment script
mhasoba Dec 16, 2018
e4cb242
Updated python II nb and assessment code
mhasoba Jan 4, 2019
a1288be
added sols directory for solutions, and made some addtions to TODOs
mhasoba Jan 18, 2019
9675e6e
Updated model fitting appendix
mhasoba Jan 21, 2019
e06946b
Updated model fitting appendix
mhasoba Jan 21, 2019
b5e8463
Removed Q/CMEE specific lectures and elements of lectures, updated mo…
mhasoba Jan 25, 2019
107bee5
Fixed missing data file link in miniproject appendix
mhasoba Feb 4, 2019
6210ab3
Added Ecological Modelling Materials from Vincent Jansen
mhasoba Feb 26, 2019
50faf71
updated solutions
mhasoba Jul 12, 2019
6caf4b5
Added Q/CMEE intro lecture
mhasoba Sep 30, 2019
c643d9f
Added Mac Notes jupyter nb to subject index nb
mhasoba Oct 1, 2019
9fc33de
Added missing spawannxs.txt data file
mhasoba Oct 1, 2019
197d710
Edited unix nb to add missing uirl for spawannxs.txt
mhasoba Oct 1, 2019
b79bbe4
Update 02-ShellScripting.ipynb
mathemage Oct 1, 2019
4508005
Update 02-ShellScripting.ipynb
mathemage Oct 1, 2019
ca3eac8
Update 03-Git.ipynb
mathemage Oct 2, 2019
b3a0bf5
Merge pull request #3 from mathemage/patch-3
mhasoba Oct 2, 2019
2a4edb1
Merge pull request #2 from mathemage/patch-2
mhasoba Oct 2, 2019
04ed542
Merge pull request #1 from mathemage/patch-1
mhasoba Oct 2, 2019
396dd88
Edited shell scripting nb
mhasoba Oct 4, 2019
ce605ac
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Oct 4, 2019
c66e0eb
Edited shell scripting nb
mhasoba Oct 4, 2019
c0a991c
Edits to Intro and Unix Chapters
mhasoba Oct 5, 2019
9195c65
Edits Git and LaTeX chapters
mhasoba Oct 5, 2019
6ddf798
Edits/corrections to some chapters
mhasoba Oct 6, 2019
44e060e
Edits to Python I chapter
mhasoba Oct 6, 2019
46dd7b6
Edits to Python I chapter
mhasoba Oct 6, 2019
a18ce61
Edits to Python I chapter
mhasoba Oct 7, 2019
faeb909
Edits to Python I chapter and code
mhasoba Oct 8, 2019
57820b1
Edits to Python I chapter
mhasoba Oct 8, 2019
1840eeb
Edits to Python I chapter
mhasoba Oct 9, 2019
505dd9f
Edits to Python I chapter and code
mhasoba Oct 9, 2019
efb27f6
Edits to Python I chapter
mhasoba Oct 9, 2019
cec26de
Edits to Python I chapter
mhasoba Oct 10, 2019
2587a1e
Edits to Python I chapter and code
mhasoba Oct 10, 2019
2efd5d8
Edits to Python I chapter
mhasoba Oct 10, 2019
d8481c5
Edits to Python I chapter and code
mhasoba Oct 10, 2019
0039b45
Added missing data file
mhasoba Oct 11, 2019
1ca5a1b
Removed old lectures
mhasoba Oct 11, 2019
da22d34
Edits to first R Chapter
mhasoba Oct 14, 2019
fb03f32
Edits to first R Chapter
mhasoba Oct 14, 2019
3984330
Edits to first R Chapter and changes to code
mhasoba Oct 15, 2019
a51eb35
Changes to code
mhasoba Oct 15, 2019
efa5094
Edits to first R Chapter
mhasoba Oct 15, 2019
9c26037
Changes to code
mhasoba Oct 15, 2019
7d9a32e
Changes to code and R chapter notebooks
mhasoba Oct 15, 2019
33399aa
Added htmp versions of notebooks
mhasoba Oct 16, 2019
b58e527
Updated R Data and Viz chapter
mhasoba Oct 16, 2019
b8a0d3b
Updated Readings
mhasoba Oct 16, 2019
6473762
Updated html versions of notebooks
mhasoba Oct 17, 2019
5e3c45c
Updated html versions of notebooks
mhasoba Oct 17, 2019
e5a8fd0
Updated R I chapter
mhasoba Oct 17, 2019
b7ff543
Updated R I chapter
mhasoba Oct 17, 2019
13bf415
Updated R chapters
mhasoba Oct 17, 2019
845e0f6
Updated R chapters
mhasoba Oct 17, 2019
38b3e10
Updated R chapters and added some missing data flies
mhasoba Oct 18, 2019
14d170a
Updated R data chapter and TODOs
mhasoba Oct 18, 2019
3abf84a
Updated R data chapter
mhasoba Oct 18, 2019
60ae01f
Updated R data chapter
mhasoba Oct 18, 2019
fecfb87
Updated R data chapter
mhasoba Oct 23, 2019
c99f0c4
Updated Miniproject and assessment appendices
mhasoba Oct 25, 2019
0e46a9b
Added updated model fitting lecture
mhasoba Oct 25, 2019
1384cce
Updated Model fitting appendix and added new lectures
mhasoba Oct 28, 2019
f601253
Updated Model fitting appendix
mhasoba Oct 28, 2019
202b0e1
Updated Model fitting appendix and lectures
mhasoba Oct 28, 2019
d5c5bbf
Updated Miniproject appendix
mhasoba Oct 29, 2019
c6fffeb
Updated Miniproject appendix and data
mhasoba Oct 29, 2019
3d61be4
Updated Miniproject appendix
mhasoba Oct 29, 2019
45721c3
Updated Miniproject appendix
mhasoba Oct 29, 2019
424c061
Restored Martin Brazeau's C lectures
mhasoba Nov 1, 2019
307654d
Updated Python chapter II
mhasoba Nov 11, 2019
c2e3934
Updated Python chapter II
mhasoba Nov 12, 2019
62c006f
Updated Python chapter II
mhasoba Nov 12, 2019
089d74f
Updated Python chapter II
mhasoba Nov 12, 2019
0185a24
Updated Python chapter II
mhasoba Nov 13, 2019
68afc08
Updated Python chapter II and added missing script
mhasoba Nov 13, 2019
44d043f
Added HTML versions of nbs
mhasoba Nov 14, 2019
5fcfb01
Updated Python chapter II and added missing script
mhasoba Nov 14, 2019
1081627
Updated some appendices
mhasoba Nov 15, 2019
7e16d3e
Updated some appendices
mhasoba Nov 15, 2019
2d441b1
Updated Python II and jupyter intro nb
mhasoba Nov 15, 2019
6dd5a61
Updated miniproject nb
mhasoba Nov 18, 2019
5a0f2ce
Updated miniproject nb and data
mhasoba Nov 18, 2019
0c39ed3
Updated miniproject nb
mhasoba Nov 19, 2019
35c365f
Updated miniproject nb
mhasoba Nov 19, 2019
337f3a5
Updated miniproject nb
mhasoba Nov 19, 2019
2bf3878
Updated miniproject nb
mhasoba Nov 19, 2019
d815795
Updated miniproject nb and gernated htmls of nbs
mhasoba Nov 19, 2019
7df437a
Updated miniproject nb and gernated htmls of nbs
mhasoba Nov 19, 2019
0e79e36
Some edits to stats nbs
mhasoba Dec 2, 2019
a87c618
Updated feedback code and appendix
mhasoba Dec 3, 2019
acb8dbb
Updated stats notebooks
mhasoba Dec 8, 2019
87ef68b
Updated htmlversions of notebooks
mhasoba Dec 9, 2019
fb3a3d8
Updated stats notebooks
mhasoba Dec 9, 2019
85395f5
Updated stats notebooks
mhasoba Dec 10, 2019
6c31cda
Updated stats notebooks
mhasoba Dec 11, 2019
6893542
Updated stats notebooks
mhasoba Dec 12, 2019
cc214b2
Update Q4 in exercises
mbrazeau Jan 6, 2020
e1c130f
Updated NLLS Lecture
mhasoba Jan 23, 2020
d41794a
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Jan 23, 2020
a39759a
Updated NLLS Lecture and model fitting juyter notebook
mhasoba Jan 24, 2020
85fd9ee
Updated model fitting juyter notebook
mhasoba Jan 27, 2020
4b135b4
Tweaks to some notebooks, and added weekly computing solutions.
mhasoba Mar 8, 2020
64f2489
Edits to Jupyter nbs
mhasoba May 22, 2020
a5a5f6e
Edits to stats Jupyter nbs
mhasoba May 29, 2020
a3196c0
Edits to stats Jupyter nbs
mhasoba May 29, 2020
c761356
Edits to stats Jupyter nbs and re-exported html versions
mhasoba May 29, 2020
6aef36f
Edits to stats Jupyter nbs
mhasoba May 29, 2020
8973634
Edits to stats Jupyter nbs
mhasoba Jun 3, 2020
8e94497
Edits to stats Jupyter nbs, removed solutions directory
mhasoba Jun 5, 2020
a1a7664
Updated Readme
mhasoba Jun 5, 2020
0b42437
Added a missing script file
mhasoba Jun 5, 2020
1c7a612
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Jun 5, 2020
fd161a3
Edits to stats Jupyter nbs
mhasoba Jun 5, 2020
a6770c9
Edits to stats Jupyter nbs
mhasoba Jun 5, 2020
75810a4
Edits to stats Jupyter nbs
mhasoba Jun 9, 2020
78cafc5
move old code examples
mbrazeau Sep 18, 2020
1dc5d87
initial updates and new exercises
mbrazeau Sep 18, 2020
6ea1b3b
Edits some notebooks
mhasoba Sep 25, 2020
4a30aa4
Edits some notebooks
mhasoba Sep 25, 2020
95ba13e
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Sep 25, 2020
a1a10fb
Updated main README
mhasoba Sep 30, 2020
e40ce4c
Switched project to a jupyter book
mhasoba Oct 3, 2020
490b4b3
Add extended python notebooks
fwimp Oct 6, 2020
8b5cb3b
Change wget example in grep to reflect new structure
fwimp Oct 6, 2020
d21f513
Merge pull request #15 from mhasoba/issue11fix
mhasoba Oct 6, 2020
8d96036
Merge pull request #14 from mhasoba/francis_logging_and_oop
mhasoba Oct 6, 2020
5c4df93
Updates to fix various errors in noteooks
mhasoba Oct 6, 2020
512a5b7
Updates to fix errors in Unix and Intro noteooks
mhasoba Oct 7, 2020
4ae5029
added a new file that we'll remove later
mhasoba Oct 8, 2020
d55931c
removed the file
mhasoba Oct 8, 2020
cb9a6af
Updated readme, configuration file, and some notebooks
mhasoba Oct 9, 2020
7f301eb
added a new file that we'll remove later
mhasoba Oct 12, 2020
e3c3dc6
removed the file
mhasoba Oct 12, 2020
48d1ec1
Updated some notebooks
mhasoba Oct 12, 2020
482e0b7
Updated some notebooks , added feedback code
mhasoba Oct 13, 2020
803cf96
Updated some practical code
mhasoba Oct 13, 2020
e1c135b
Updated some notebooks and assessment appendix
mhasoba Oct 15, 2020
7a1c65e
Updated Python I notebook and code
mhasoba Oct 16, 2020
3e0e284
Updated some notebooks and feedback script
mhasoba Oct 20, 2020
f4ac9c9
Updated some notebooks
mhasoba Oct 23, 2020
6d4378f
Updated Model Fitting lecture for 2020-21
mhasoba Oct 26, 2020
3612c8d
Updated NLLS Fitting lecture for 2020-21
mhasoba Oct 27, 2020
ec92082
Updated some notebooksand R code
mhasoba Oct 30, 2020
173f736
Updated some notebooks
mhasoba Nov 2, 2020
25d0b33
Updated some readings
mhasoba Nov 10, 2020
8d978dd
Updated some Notebooks, especially Python II
mhasoba Nov 15, 2020
77862f2
Add tmux suggestion to jupyter notebook notebook
fwimp Nov 17, 2020
6b09acc
Add note on using tmux with remote jobs
fwimp Nov 17, 2020
a277f0b
Merge pull request #36 from mhasoba/jupyter_tmux
mhasoba Nov 17, 2020
bf9067f
Updated blackbirds.py practical script
mhasoba Nov 17, 2020
04d24cd
Add `with` statement section to python I
fwimp Nov 17, 2020
f544598
Update csv read example to use `with`
fwimp Nov 17, 2020
dec4d54
Added lmfit tutorial
Nov 18, 2020
f4931a1
Added lmfit tutorial
Nov 18, 2020
fd0688d
Merge pull request #39 from mhasoba/lmfit_tutorial
mhasoba Nov 19, 2020
c20eac2
Added Pablo's Model fitting in Python Appendix
mhasoba Nov 23, 2020
973dba9
Erased exercise solutions
Nov 23, 2020
8d54fc0
Merge pull request #44 from mhasoba/lmfit_tutorial
mhasoba Nov 23, 2020
5ed1d3d
uploaded solutions for exercise
Nov 23, 2020
e338e2d
Merge pull request #45 from mhasoba/lmfit_tutorial
mhasoba Nov 23, 2020
34af6d0
Updated some notebooks
mhasoba Nov 26, 2020
e3a15b4
Merge pull request #38 from mhasoba/python_1_usewith
mhasoba Dec 1, 2020
0d7df6f
Updated some notebooks and the NLLS lecture
mhasoba Dec 7, 2020
88bba63
Merge branch 'master' of github.com:mhasoba/TheMulQuaBio
mhasoba Dec 7, 2020
bb25590
Further updated the NLLS notebook and lecture
mhasoba Dec 7, 2020
19a227d
Updated NLLS lecture
mhasoba Dec 7, 2020
23dd25a
Updated NLLS lecture
mhasoba Dec 7, 2020
d5fd640
update printf and string variables for correct use
mbrazeau Jan 12, 2021
9bf0b7f
Added noGit flag. Fixed Week1/10 issue.
JCur96 Feb 23, 2021
4036426
edits to profiling tools, plus some additions to the feedback script …
JCur96 Mar 1, 2021
4292bd3
Added optional noGit and garbageCollection to the Feedback script
JCur96 Mar 2, 2021
42a451f
Added weekly expected script checking, updated launch.json with addit…
JCur96 Mar 3, 2021
3ce63d4
Double checked all scripts where in the lists for each week
JCur96 Mar 13, 2021
41500d8
Removed extraneous files!
JCur96 Mar 13, 2021
3b3ee1c
Update Feedback.py
JCur96 Mar 13, 2021
3c8e54d
Merge pull request #51 from JCur96/QOLChanges
mhasoba Mar 18, 2021
19461e4
Updated some jupyter Notebooks
mhasoba Oct 7, 2021
31d250c
Updated notebooks
mhasoba Oct 9, 2021
cf9a970
Book Intro
mhasoba Oct 9, 2021
5fe06cb
Updated book's config
mhasoba Oct 9, 2021
acfc26a
Updated book build
mhasoba Oct 9, 2021
f16e665
Updated some Notebooks and Readings
mhasoba Oct 13, 2021
0cec0ac
Updated book's config (fixed issue with inline latex rendering) and u…
mhasoba Oct 18, 2021
e0f1584
Updated model fitting lecture and some notebooks
mhasoba Oct 26, 2021
9bf4c29
Updated model fitting lecture and some notebooks
mhasoba Oct 26, 2021
78b5b65
Updated model fitting lecture
mhasoba Oct 26, 2021
b26edc6
Updated model fitting lecture pdf and Feedback script
mhasoba Oct 29, 2021
c969536
update intro to language
mbrazeau Jan 5, 2022
0615f0f
Merge pull request #66 from mhasoba/mbrazeau-patch-1
mhasoba Jan 5, 2022
b6fd1c6
full update; rewrite
mbrazeau Jan 9, 2022
65c4502
update; rewrite
mbrazeau Jan 9, 2022
9132b37
add a new exercise
mbrazeau Jan 9, 2022
91860c6
add new exercise
mbrazeau Jan 9, 2022
21a55c7
update info on floating points
mbrazeau Jan 9, 2022
ff0b814
Merge pull request #67 from mhasoba/cprog
mhasoba Jan 9, 2022
f3b4dd7
add progs from lectures
mbrazeau Jan 12, 2022
8f7f88c
add pointers examples
mbrazeau Jan 12, 2022
7c616b5
add shiftbyte example code
mbrazeau Jan 12, 2022
9228b50
day 5 morning programs
mbrazeau Jan 14, 2022
9a96fdb
files from afternoon: linking C and python
mbrazeau Jan 14, 2022
48def91
add the calculator program
mbrazeau Jan 14, 2022
ec340bb
ensuring all files up-to-date
mbrazeau Jan 20, 2022
a7d5377
Fix erroneous order of least/most sig bits
mbrazeau Jan 20, 2022
1f84e38
Fix missing float cast and typo
mbrazeau Jan 21, 2022
c1d149e
Note to reader about one of the examples
mbrazeau Jan 21, 2022
e254e66
fix error in variable naming
mbrazeau Jan 21, 2022
a95bac2
fix errors in var names
mbrazeau Jan 21, 2022
3bbf652
Merge pull request #68 from mhasoba/mbrazeau-patch-2
mhasoba Jan 21, 2022
7cea900
Merge pull request #69 from mhasoba/cprog
mhasoba Jan 21, 2022
7b95a3b
single consolidated file with all slides
mbrazeau Jan 31, 2022
f78e2b4
Merge pull request #70 from mhasoba/cprog
mhasoba Jan 31, 2022
37c6898
fixed error on bit significance
mbrazeau Mar 23, 2022
9727732
Merge pull request #72 from mhasoba/cprog
mhasoba Mar 24, 2022
ddbaf10
Fixed various notebook issues, including #59 and 60
mhasoba May 15, 2022
a2ddd9e
Fixed some notebook issues, suppressed two topic chapters
mhasoba Jun 15, 2022
c6ea2d8
Move Logging and OOP appendices to main notebook dir
fwimp Oct 2, 2022
7081a02
Fix toc after typo
fwimp Oct 2, 2022
9f907cd
Update logging tutorial with fixed string formatting as in #22 and #5…
fwimp Oct 2, 2022
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61 changes: 60 additions & 1 deletion .gitignore
100644 → 100755
Original file line number Diff line number Diff line change
@@ -1 +1,60 @@
*.pyc
*~
*.tmp
content/results/*
content/[Ss]andbox/*

# Python
*.py[co]
__pycache__/

#Jupyter
.ipynb_checkpoints/

# R History files
.Rhistory
.Rapp.history

# R Session Data files
.RData

## Core latex/pdflatex auxiliary files:
*.aux
*.lof
*.log
*.lot
*.fls
*.out
*.toc
*.fmt
*.fot
*.cb
*.cb2
.*.lb

## Intermediate documents:
*.dvi
*.xdv
*-converted-to.*
# these rules might exclude image files for figures etc.
# *.ps
# *.eps
# *.pdf

## Generated if empty string is given at "Please type another file name for output:"
.pdf

## Bibliography auxiliary files (bibtex/biblatex/biber):
*.bbl
*.bcf
*.blg
*-blx.aux
*-blx.bib
*.run.xml

## Build tool auxiliary files:
*.fdb_latexmk
*.synctex
*.synctex(busy)
*.synctex.gz
*.synctex.gz(busy)
*.pdfsync
42 changes: 0 additions & 42 deletions BiolStructs_C/Part_00-C_for_biologists.md

This file was deleted.

211 changes: 0 additions & 211 deletions BiolStructs_C/Part_01-Compiler_and_basics.md

This file was deleted.

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