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dcolinmorgan / grn_bootstrap_demo.ipynb
Created January 20, 2025 02:51
GRN_bootstrap_demo.ipynb
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@dcolinmorgan
dcolinmorgan / torch_MP_pseudo.py
Created March 19, 2024 06:01
psuedocode for message passing algorithm utilizing spatial, ssRNA-seq and ChIP data, via pytorch
import torch
import torch.nn as nn
import torch.nn.functional as F
class GraphConvolution(nn.Module):
def __init__(self, in_features, out_features):
super(GraphConvolution, self).__init__()
self.weight = nn.Parameter(torch.FloatTensor(in_features, out_features))
self.bias = nn.Parameter(torch.FloatTensor(out_features))
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dcolinmorgan / wrangle_classifier_demo.ipynb
Created July 7, 2022 09:52
wrangle_classifier_demo.ipynb
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dcolinmorgan / notes
Last active September 13, 2022 02:35
jupyter/colab gist
## git PR local sync & checkout e.g.
git fetch origin pull/397/head:cuml
git checkout cuml
##local julia notebook
julia -e 'using IJulia; IJulia.notebook()'
##connect colab to local runtime
##https://research.google.com/colaboratory/local-runtimes.html
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dcolinmorgan / init.vim
Created November 12, 2020 22:18 — forked from chearon/init.vim
The best possible neovim configuration
" Neovim-only, use in true color terminal
" Vundle config
set rtp+=~/.vim/bundle/Vundle.vim
call vundle#begin()
" Vundle vundles
Plugin 'VundleVim/Vundle.vim'
Plugin 'ap/vim-css-color'
Plugin 'hail2u/vim-css3-syntax'
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dcolinmorgan / ssh_config
Last active May 8, 2022 03:18
#./.ssh/config
Host ferry
User redmo
Hostname ferry.bwh.harvard.edu
DynamicForward 8080
IdentityFile ~/.ssh/id_rsa
Host hku
user dcmorgan
Hostname hpc02.sbms.hku.hk
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dcolinmorgan / bash_config
Last active September 6, 2022 01:09
# activate via source ./bash_profile
alias hkuvpn='sudo openconnect -u dcmorgan -b vpn2fa.hku.hk'
alias nanfs='sshfs -p 22 [email protected]:/udd/redmo/ ~/mountchan -oauto_cache,reconnect,defer_permissions,noappledouble,negative_vncache,volname=myNantucket'
alias ferryfs='sshfs -p 22 [email protected]:/udd/redmo/ ~/mountchan -oauto_cache,reconnect,defer_permissions,noappledouble,negative_vncache,volname=myFerry'
alias tmp0fs='sshfs -p 22 [email protected]:/pc/redmo/ ~/mountchan -oauto_cache,reconnect,defer_permissions,noappledouble,negative_vncache,volname=myTmp0'
alias tmp1fs='sshfs -p 22 [email protected]:/d/tmp/redmo/ ~/mountchan -oauto_cache,reconnect,defer_permissions,noappledouble,negative_vncache,volname=myTmp1'
alias unfs='diskutil unmount force /Users/redmo/mountchan'
alias fpcfs='sshfs -p 22 [email protected]:/udd/redmo/ ~/pc/redmo/ -oauto_cache,reconnect,defer_permissions,noappledouble,negative_vncache,volname=myVolName'
alias unfpc='diskutil un