Ecological and Evolutionary Genomics 2021 #PandemicVersion
This is the space where all lecture/lab materials will be placed.
You can also access the syllabus and schedule here: https://drive.google.com/file/d/1XK9onhq1E_ZiBEFA1bCQ2Dw_XZij0LWc/view?usp=sharing
Peer grading form here: https://docs.google.com/forms/d/e/1FAIpQLSd7rkeyKqVPWe43iiW_iNz4fIhvMzFOU6UAU2ORkraSwZwKig/viewform?usp=sf_link
Lecture 1: Intro to basic DNA-RNA-Protein & History available upon request [Files too large to host here]
Lecture 2: Intro to SCC link: https://bostonu.zoom.us/rec/share/w1pL6n5MYcu_smNmsY9L1U5EMGnqde1uyC2vcZage4yWhGwpoRExWPcXx7Q__Nwe.a5JNIXNsrcmK1yIE?startTime=1612275832000 Linux cheat sheet: http://scv.bu.edu/documents/Linux_SCC_CheatSheet.pdf SCC cheat sheet: http://scv.bu.edu/documents/SCC_CheatSheet.pdf If you are still looking for more practice in Linux: http://swcarpentry.github.io/shell-novice/
Lecture 3: Going over Linux HW and Introduction to RStudio: https://bostonu.zoom.us/rec/share/SqkgjZNyPGvaphEuOc_vHraD2qUun2d4nSuHxm0fvrx787poBifCgcBPnZMM5A.aXMz38RSiJefp5zi (Access Password: 76accD?P) If you are still looking for more practice in R: http://swcarpentry.github.io/r-novice-gapminder/ Try chapters 1-7 I also recommend swirl for people who are really new to R: https://swirlstats.com/ Here are some additional short videos from a Harvard course on R: https://www.youtube.com/playlist?list=PLGuncvBacIacY7g42iJRcIkhgnzKTjKbC
Lecture 4: Introduction to Git using RStudio interface: https://bostonu.zoom.us/rec/share/WKwCO0In9lsdV_PPJdNdV4-68OJnL7c-BEfDVZSNP8F2i5LG-0i2vWQ--hd5I9HK.9Rmav3Fag9wmfyas?startTime=1612879440000 (Access Password: acyS$zf9)
Lecture 5: Introduction to RMarkdown (No video available) https://rstudio.com/wp-content/uploads/2015/02/rmarkdown-cheatsheet.pdf
Lecture 6: Introduction to Community Ecological Genomics Part 1: Reading 1: Deiner_et_al-2017-Molecular_Ecology (pdf can be found in the readings folder) Googledoc for discussions: https://docs.google.com/spreadsheets/d/1XFUeqUxM9hAAH9lWr-mzeBtBpCVziKgcLc8Qs_9OZEs/edit#gid=0 Recorded lecture: https://bostonu.zoom.us/rec/share/QP_O50x_PU58GfdUJcIV_rPU_Ku7B4ZF3oSUFPv8PqIEYzTvVwDQwDCo_dbfr53P._b7qBmyfl1WkjgFL (Access Password: b93C@0QM)
Lecture 7: How to give a strong presentation (~10.5 minutes): https://bostonu.zoom.us/rec/share/Tp4nMAtLK65NHR1_Iq_B_kbjAdW-DEY9WpGtdMZnql9fwZc97PjRHp5f0FyUxXRt.rj3STEN4pCDGfMkd (Access Password: i^tqF7vW)
Lecture 8: Introduction to Metabarcoding: https://bostonu.zoom.us/rec/share/GtQV-0PUjeAdocoqw06JulyNjDNENBhbP18sHfr-c-5XThgfmnnlRMkBB0zJDnQ7.WMaWCn6El48U7lDq (Access Password: k1.!5.m7)
Lecture 9: Discussion 1 https://bostonu.zoom.us/rec/share/YtKQ36xAAKwRZr7aw5M19dI6I-hFm2Gi1TXELzjbMB_Jy37RNMKKpkHl8r2fGhAB.aHHRMhrBdeZI9jEK (Access Password: 2@.Ng3V8)
Lecture 10: Guest Lectures on Gene Expression Profiling https://bostonu.zoom.us/rec/share/4VHHK2fArHSRPT8-g7Rar7dF5MZl9Qg1iRlbWW-8BZYMmDFXlbeHtRg0Ant6Ifzm.YgIUNMbcPZt6VL61 (Access Password: ak7@Uvjp)
Lecture 11: Presentations of Assignment 1 https://bostonu.zoom.us/rec/share/OM2_ehcpAgA3_TzLbFtFabJ8WgrzKKGulynGKhbckJDl5z2f0RqrO7Kd3YMKyTAc.b_ta-3mABPqbxPZ9 (Access Password: #9G5e=tm)
Lecture 12: Introduction to Gene Expression https://bostonu.zoom.us/rec/share/h-XSW8EMBJFx8IkuTThWNhe5BRG1vVmWGOtM0L4rEUPKNmLdXAIfMYA-xQoo2uvI.ZhJIRA_XFtpeNtpt (Access Password: 4Rg$5j7c)
Lecture 13: Discussion 2: Gene Expression https://bostonu.zoom.us/rec/share/X3rJGmyzmxfDLeaqxz1lVptsGLdCrGd4plz4GgM9pMqPOsIuvJHAWQaUlX0qSA3Q.Z2DWeHv4qUL7-VKv (Access Password: *T#j1sBj)
Lecture 14: DESeq2 + Gene Ontology Enrichment https://bostonu.zoom.us/rec/share/AYQBO9d2JNcXSAvan59ecg7qoVNJsxs6ojkKENWzX2QnvSY4fRTJI7-r1IACX1n8._68oHQOfGtZfBHdF (Access Password: CHC1U4&z)
Lecture 15: WGCNA https://bostonu.zoom.us/rec/share/PKlBEck1tw2cx62d3SO8X_d9cvezfH1Uv2V5y4yQ8v7A-dNky0IhTP9qvGXLONZn.6i_HO8GEJ3H4ENKZ (Access Password: *@6$1x.q) Link to tutorial: https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-9-559
Discussion 4: Controversial Genomics https://bostonu.zoom.us/rec/share/RloXCU0TLiU04cdMeMidXEhafmDm20GoLi4wZPjGGqT6uhL5_kTElMSvnirR6Gj2.io9Ja6GoagUa8RIX (Access Password: j68Xy^mv)
Final Presentations! https://bostonu.zoom.us/rec/share/p85AK6C4d6WivYIy12ACgUYHHsf87vZ9J9IQOmT68EVmjfxd1Oa0P7cPkDE2CmVD.tdkq1FxAhu8P0E1m (Access Password: O$uqu0cw)