doc updates, new branch, fixed to be directly branched from master instead of some other branch (#374)

Co-authored-by: John Wu <[email protected]>

Author: jhnwu3

docs/about.rst

@@ -3,18 +3,24 @@ About us
 
 We are the `SunLab <http://sunlab.org/>`_ healthcare research team at UIUC.
 
-`*Zhenbang Wu <https://zzachw.github.io/>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
+Current Maintainers
+------------------
 
-`*Chaoqi Yang <https://ycq091044.github.io//>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
+`Zhenbang Wu <https://zzachw.github.io/>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
 
-`Patrick Jiang <https://www.linkedin.com/in/patrick-j-3492b4235/>`_ (M.S. Student @ University of Illinois Urbana-Champaign)
+`John Wu <https://jhnwu3.github.io/>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
 
-`Zhen Lin <https://zlin7.github.io/>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
+`Junyi Gao <http://aboutme.vixerunt.org/>`_ (M.S. @ UIUC, Ph.D. Student @ University of Edinburgh)
 
-`Junyi Gao <http://aboutme.vixerunt.org/>`_ (M.S. Student @ UIUC, Ph.D. Student @ University of Edinburgh)
+`Jimeng Sun <http://sunlab.org/>`_ (Professor @ University of Illinois Urbana-Champaign)
 
-`Benjamin Danek <https://bpdanek.github.io/>`_ (M.S. Student @ University of Illinois Urbana-Champaign)
+Alumni
+------
 
-`Jimeng Sun <http://sunlab.org/>`_ (Professor @ University of Illinois Urbana-Champaign)
+`Chaoqi Yang <https://ycq091044.github.io//>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
+
+`Zhen Lin <https://zlin7.github.io/>`_ (Ph.D. Student @ University of Illinois Urbana-Champaign)
+
+`Benjamin Danek <https://bpdanek.github.io/>`_ (M.S. Student @ University of Illinois Urbana-Champaign)
 
-(* indicates equal contribution)
+`Patrick Jiang <https://www.linkedin.com/in/patrick-j-3492b4235/>`_ (M.S. Student @ University of Illinois Urbana-Champaign)

docs/index.rst

@@ -137,13 +137,11 @@ User could also store their own dataset into our ``<pyhealth.datasets.SampleBase
 
 .. code-block:: python
 
-    from pyhealth.models import Transformer
+    from pyhealth.models import RNN
 
-    model = Transformer(
-        dataset=mimic3sample,
-        feature_keys=["conditions", "procedures"],
-        label_key="mortality",
-        mode="binary",
+
+    model = RNN(
+      dataset=samples,
     )
 
 * **STEP 4: <pyhealth.trainer>** is the training manager with ``train_loader``, the ``val_loader``, ``val_metric``, and specify other arguemnts, such as epochs, optimizer, learning rate, etc. The trainer will automatically save the best model and output the path in the end.

docs/tutorials.rst

@@ -1,7 +1,7 @@
 Tutorials
 ========================
 
- We provide the following tutorials to help users get started with our pyhealth. 
+ We provide the following tutorials to help users get started with our pyhealth. Please bare with us as we update the docuemntation on how to use pyhealth.
 
 
 `Tutorial 0: Introduction to pyhealth.data <https://colab.research.google.com/drive/1y9PawgSbyMbSSMw1dpfwtooH7qzOEYdN?usp=sharing>`_  `[Video] <https://www.youtube.com/watch?v=Nk1itBoLOX8&list=PLR3CNIF8DDHJUl8RLhyOVpX_kT4bxulEV&index=2>`_ 
@@ -23,15 +23,16 @@ Tutorials
 
  The following tutorials will help users build their own task pipelines. `[Video] <https://www.youtube.com/watch?v=GGP3Dhfyisc&list=PLR3CNIF8DDHJUl8RLhyOVpX_kT4bxulEV&index=12>`_ 
 
-`Pipeline 1: Chest Xray Classification <https://colab.research.google.com/drive/10CSb4F4llYJvv42yTUiRmvSZdoEsbmFF?usp=sharing>`_ 
 
-`Pipeline 2: Medical Coding <https://colab.research.google.com/drive/1JoPpXqqB1_lGF1XscBOsDHMLtgvlOYI1?usp=sharing>`_ 
+`Pipeline 1: Chest Xray Classification <https://colab.research.google.com/drive/18vK23gyI1LjWbTgkq4f99yDZA3A7Pxp9?usp=sharing>`_ 
 
-`Pipeline 3: Medical Transcription Classification <https://colab.research.google.com/drive/1bhCwbXce1YFtVaQLsOt4FcyZJ1_my7Cs?usp=sharing>`_ 
+`Pipeline 2: Medical Coding <https://colab.research.google.com/drive/1ThYP_5ng5xPQwscv5XztefkkoTruhjeK?usp=sharing>`_ 
 
-`Pipeline 4: Mortality Prediction <https://colab.research.google.com/drive/1Qblpcv4NWjrnADT66TjBcNwOe8x6wU4c?usp=sharing>`_ 
+`Pipeline 3: Medical Transcription Classification <https://colab.research.google.com/drive/1bjk_IArc2ZmXGR6u6Qzyf7kh70RdiY9c?usp=sharing>`_ 
 
-`Pipeline 5: Readmission Prediction <https://colab.research.google.com/drive/1mpSeNCAthXG3cqROkdUcUdozIPIMTCuo?usp=sharing>`_ 
+`Pipeline 4: Mortality Prediction <https://colab.research.google.com/drive/1b9xRbxUz-HLzxsrvxdsdJ868ajGQCY6U?usp=sharing>`_ 
+
+`Pipeline 5: Readmission Prediction <https://colab.research.google.com/drive/1h0pAymUlPQfkLFryI9QI37-HAW1tRxGZ?usp=sharing>`_ 
 
 .. `Pipeline 5: Phenotype Prediction <https://colab.research.google.com/drive/10CSb4F4llYJvv42yTUiRmvSZdoEsbmFF>`_