From a680c3429907da51ddc7c74d49ec4495f782cc90 Mon Sep 17 00:00:00 2001 From: jlee733 <75899901+jlee733@users.noreply.github.com> Date: Mon, 8 Feb 2021 14:38:34 -0500 Subject: [PATCH 1/2] Create aNewReadMe.md Original ReadMe.md file --- test/aNewReadMe.md | 68 ++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 68 insertions(+) create mode 100644 test/aNewReadMe.md diff --git a/test/aNewReadMe.md b/test/aNewReadMe.md new file mode 100644 index 00000000..0eb8d694 --- /dev/null +++ b/test/aNewReadMe.md @@ -0,0 +1,68 @@ +# Introduction + +A github repo for the Data Science in Biomedical Engineering and Data Science for Public Health Courses. + +[JHU academic calendar](https://studentaffairs.jhu.edu/registrar/academic-calendar/) +[JHBSPH academic calendar](https://www.jhsph.edu/academics/calendar/2019-2020.html/) + +Course location / time: Classes will be done asyncronously. Recorded lectures will be posted on the Teams site for the class. In addition, there will be two office hours / live lectures / live coding sessions per week on Tuesdays and Thursdays. These live sessions are not required and will not be recorded. Students are welcome to attend 0, 1 or both. The two within a day will be highly redudant. However, they will be highly essential for most students in the class. In addition, zoom meetings with instructor are available on request. If you have a conflicting class(es), you should be able to take this class provided you can make some of the live lecture times. + +Times of live sessions +* 8:30 AM - 9:50 AM +* 1:30 PM - 2:45 PM + +TA office hours: +* 9:00 - 10:00 Friday + +Course instructor: [Brian Caffo](www.bcaffo.com) + +Course instructor and TA communication: [Teams](https://teams.microsoft.com/l/team/19%3ab2b41e73e5054ec0945f3cf946a54896%40thread.tacv2/conversations?groupId=c0f7b3c4-71a1-46b4-8c0f-bdb732869de0&tenantId=9fa4f438-b1e6-473b-803f-86f8aedf0dec) + +I cannot stress enought the need to be active on Teams for the class. Much of the discussion will occur there. New announcements will be made there. + +# Video conferencing links +Video conferencing links will be sent via the Teams site and initally emails to avoid zoom bombers. + +# Grading: +* There will be once weekly online form submissions (quizzes) / projects / assignments due Mondays at 5:00 PM, unless otherwise noted. These will be based on points and your percentage of total points will represent 70% of the grade. The specific format of the evalutation will be communicated each week. +* These can be handed in and amended anytime up until the due date +* There will be one capstone project that represents 30% of the total grade. This can be done in teams. +* Every evaluation is open book, open internet .... +* You may not consult with fellow students on any quiz prortion of the assignment. +* You may consult with fellow students on any coding project or assigment (other than a quiz) +* All work submitted must be your own. Copying or plagiarism will be considered a breach of student conduct. +* If doing a team capstone project, seperate github submissions must be made and the role of each team member delineated in the readme file. + +# Curriculum + +* [Motivation](https://github.com/bcaffo/ds4bme/blob/master/motivation.md) +* [Data science tools](https://github.com/bcaffo/ds4bme/blob/master/dataScienceTools.md) +* [R programming](https://github.com/bcaffo/ds4bme/blob/master/rprogramming.md) +* [Basic Python](https://github.com/bcaffo/ds4ph-bme/blob/master/python.md) +* [Reproducible report writing](https://github.com/bcaffo/ds4bme/blob/master/reproducible.md) +* [Exploratory data analysis / interactive graphs](https://github.com/bcaffo/ds4bme/blob/master/eda.md) +* [Developing data products](https://github.com/bcaffo/ds4bme/blob/master/ddp.md) +* [Probability](https://github.com/bcaffo/ds4bme/blob/master/probability.md) [NOT COVERED] +* [Statistical inference](https://github.com/bcaffo/ds4bme/blob/master/inference.md) [NOT COVERED] +* [Data resampling methods](https://github.com/bcaffo/ds4bme/blob/master/resampling.md) [NOT COVERED] +* [Linear Models / regression](https://github.com/bcaffo/ds4bme/blob/master/regression.md) +* [Generalized linear models](https://github.com/bcaffo/ds4bme/blob/master/regression.md) +* [Penalization and extension of regression models and glms](https://github.com/bcaffo/ds4ph-bme/blob/master/penalization.md) +* [Neural networks](https://github.com/bcaffo/ds4bme/tree/master) +* Capstone project + +# Course communication +All course communcation will come be over the Teams site [2021 Advanced Data Science for Public Health and BME](https://teams.microsoft.com/l/team/19%3ab2b41e73e5054ec0945f3cf946a54896%40thread.tacv2/conversations?groupId=c0f7b3c4-71a1-46b4-8c0f-bdb732869de0&tenantId=9fa4f438-b1e6-473b-803f-86f8aedf0dec) Teams site. + +## Important computing resources + +* [Rstudio cloud](https://rstudio.cloud/) +* [Colab notebooks](https://colab.research.google.com/) +* [Anaconda](https://www.anaconda.com/products/individual) +* [R](https://cran.r-project.org/) +* [Rstudio](https://rstudio.com/) +* [Shinyapps.io](https://www.shinyapps.io/) +* [github](https://github.com/) + + + From 5c186fb3fb8655931704d9e9ca01e768b4b6c37d Mon Sep 17 00:00:00 2001 From: jlee733 <75899901+jlee733@users.noreply.github.com> Date: Mon, 8 Feb 2021 16:01:44 -0500 Subject: [PATCH 2/2] Create poem The Raven by Edgar Allen Poe --- poem | 125 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ 1 file changed, 125 insertions(+) create mode 100644 poem diff --git a/poem b/poem new file mode 100644 index 00000000..0147dcda --- /dev/null +++ b/poem @@ -0,0 +1,125 @@ +Once upon a midnight dreary, while I pondered, weak and weary, +Over many a quaint and curious volume of forgotten lore, +While I nodded, nearly napping, suddenly there came a tapping, +As of some one gently rapping, rapping at my chamber door. +"'Tis some visitor," I muttered, "tapping at my chamber door- + Only this, and nothing more." + +Ah, distinctly I remember it was in the bleak December, +And each separate dying ember wrought its ghost upon the floor. +Eagerly I wished the morrow;- vainly I had sought to borrow +From my books surcease of sorrow- sorrow for the lost Lenore- +For the rare and radiant maiden whom the angels name Lenore- + Nameless here for evermore. + +And the silken, sad, uncertain rustling of each purple curtain +Thrilled me- filled me with fantastic terrors never felt before; +So that now, to still the beating of my heart, I stood repeating, +"'Tis some visitor entreating entrance at my chamber door- +Some late visitor entreating entrance at my chamber door;- + This it is, and nothing more." + +Presently my soul grew stronger; hesitating then no longer, +"Sir," said I, "or Madam, truly your forgiveness I implore; +But the fact is I was napping, and so gently you came rapping, +And so faintly you came tapping, tapping at my chamber door, +That I scarce was sure I heard you"- here I opened wide the door;- + Darkness there, and nothing more. + +Deep into that darkness peering, long I stood there wondering, fearing, +Doubting, dreaming dreams no mortal ever dared to dream before; +But the silence was unbroken, and the stillness gave no token, +And the only word there spoken was the whispered word, "Lenore?" +This I whispered, and an echo murmured back the word, "Lenore!"- + Merely this, and nothing more. + +Back into the chamber turning, all my soul within me burning, +Soon again I heard a tapping somewhat louder than before. +"Surely," said I, "surely that is something at my window lattice: +Let me see, then, what thereat is, and this mystery explore- +Let my heart be still a moment and this mystery explore;- + 'Tis the wind and nothing more!" + +Open here I flung the shutter, when, with many a flirt and flutter, +In there stepped a stately Raven of the saintly days of yore; +Not the least obeisance made he; not a minute stopped or stayed he; +But, with mien of lord or lady, perched above my chamber door- +Perched upon a bust of Pallas just above my chamber door- + Perched, and sat, and nothing more. + +Then this ebony bird beguiling my sad fancy into smiling, +By the grave and stern decorum of the countenance it wore. +"Though thy crest be shorn and shaven, thou," I said, "art sure no craven, +Ghastly grim and ancient Raven wandering from the Nightly shore- +Tell me what thy lordly name is on the Night's Plutonian shore!" + Quoth the Raven, "Nevermore." + +Much I marvelled this ungainly fowl to hear discourse so plainly, +Though its answer little meaning- little relevancy bore; +For we cannot help agreeing that no living human being +Ever yet was blessed with seeing bird above his chamber door- +Bird or beast upon the sculptured bust above his chamber door, + With such name as "Nevermore." + +But the Raven, sitting lonely on the placid bust, spoke only +That one word, as if his soul in that one word he did outpour. +Nothing further then he uttered- not a feather then he fluttered- +Till I scarcely more than muttered, "Other friends have flown before- +On the morrow he will leave me, as my hopes have flown before." + Then the bird said, "Nevermore." + +Startled at the stillness broken by reply so aptly spoken, +"Doubtless," said I, "what it utters is its only stock and store, +Caught from some unhappy master whom unmerciful Disaster +Followed fast and followed faster till his songs one burden bore- +Till the dirges of his Hope that melancholy burden bore + Of 'Never- nevermore'." + +But the Raven still beguiling all my fancy into smiling, +Straight I wheeled a cushioned seat in front of bird, and bust and door; +Then upon the velvet sinking, I betook myself to linking +Fancy unto fancy, thinking what this ominous bird of yore- +What this grim, ungainly, ghastly, gaunt and ominous bird of yore + Meant in croaking "Nevermore." + +This I sat engaged in guessing, but no syllable expressing +To the fowl whose fiery eyes now burned into my bosom's core; +This and more I sat divining, with my head at ease reclining +On the cushion's velvet lining that the lamp-light gloated o'er, +But whose velvet violet lining with the lamp-light gloating o'er, + She shall press, ah, nevermore! + +Then methought the air grew denser, perfumed from an unseen censer +Swung by Seraphim whose footfalls tinkled on the tufted floor. +"Wretch," I cried, "thy God hath lent thee- by these angels he hath sent thee +Respite- respite and nepenthe, from thy memories of Lenore! +Quaff, oh quaff this kind nepenthe and forget this lost Lenore!" + Quoth the Raven, "Nevermore." + +"Prophet!" said I, "thing of evil! - prophet still, if bird or devil! - +Whether Tempter sent, or whether tempest tossed thee here ashore, +Desolate yet all undaunted, on this desert land enchanted- +On this home by Horror haunted- tell me truly, I implore- +Is there- is there balm in Gilead?- tell me- tell me, I implore!" + Quoth the Raven, "Nevermore." + +"Prophet!" said I, "thing of evil! - prophet still, if bird or devil! +By that Heaven that bends above us- by that God we both adore- +Tell this soul with sorrow laden if, within the distant Aidenn, +It shall clasp a sainted maiden whom the angels name Lenore- +Clasp a rare and radiant maiden whom the angels name Lenore." + Quoth the Raven, "Nevermore." + +"Be that word our sign in parting, bird or fiend," I shrieked, upstarting- +"Get thee back into the tempest and the Night's Plutonian shore! +Leave no black plume as a token of that lie thy soul hath spoken! +Leave my loneliness unbroken!- quit the bust above my door! +Take thy beak from out my heart, and take thy form from off my door!" + Quoth the Raven, "Nevermore." + +And the Raven, never flitting, still is sitting, still is sitting +On the pallid bust of Pallas just above my chamber door; +And his eyes have all the seeming of a demon's that is dreaming, +And the lamp-light o'er him streaming throws his shadow on the floor; +And my soul from out that shadow that lies floating on the floor + Shall be lifted- nevermore!