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@rchikhi
rchikhi / wheeler_graphs.txt
Last active March 14, 2021 20:55
Wheeler graphs
Gagie, Manzini, Siren
Theoretical Computer Science, 2017
https://www.sciencedirect.com/science/article/pii/S0304397517305285
Notes of a whiteboard presentation to the Bonsai team in Lille.
These notes largely follow the paper.
Rayan Chikhi, 2019
@retorquere
retorquere / pandoc-pptx-template.py
Last active April 11, 2024 16:34
#!/usr/bin/env python3
import zipfile
import sys
import re
import xml.etree.ElementTree as ET
namespaces = {
'a': 'http://schemas.openxmlformats.org/drawingml/2006/main',
'r': 'http://schemas.openxmlformats.org/officeDocument/2006/relationships',
@lmakarov
lmakarov / lambda-basic-auth.js
Created August 30, 2017 19:15
Basic HTTP Authentication for CloudFront with Lambda@Edge
'use strict';
exports.handler = (event, context, callback) => {
// Get request and request headers
const request = event.Records[0].cf.request;
const headers = request.headers;
// Configure authentication
const authUser = 'user';
const authPass = 'pass';
@darencard
darencard / genome_oneliners.md
Last active March 12, 2024 17:40
Quick one-liner commands that are useful for genomics

Useful Genomics Oneliners

The following commands sometimes require non-standard software like bioawk and seqtk.

rename scaffold headers with sequential numbers and lengths ("scaffold-N ")

bioawk -c fastx '{ print ">scaffold-" ++i" "length($seq)"\n"$seq }' < genome.fasta > new_genome.fasta

make association table of old and renamed scaffold names after above renaming command

@mxmader
mxmader / github_api_example.py
Created April 6, 2017 21:12
Simple GitHub API example using python and personal access token
import requests
import json
####
# inputs
####
username = ''
# from https://github.com/user/settings/tokens
token = ''
@mprokopov
mprokopov / core.cljs
Last active November 1, 2019 21:05
rum + material-ui
(ns speakup.core
(:require [rum.core :as rum]
[cljs-react-material-ui.core :refer [get-mui-theme color]]
[cljs-react-material-ui.icons :as ic]
[cljs-react-material-ui.rum :as ui]
[cljs-react-material-ui.chip-input.rum :refer [chip-input]]))
(enable-console-print!)
;; (println "This text is printed from src/speakup/core.cljs. Go ahead and edit it and see reloading in action.")
@stefanfoulis
stefanfoulis / docker_for_mac_disk_default_size.md
Last active June 29, 2023 12:02
How to resize Docker for Mac Disk image and set the default size for new images

Set the default size for new Docker for Mac disk images

UPDATE: The instructions here are no longer necessary! Resizing the disk image is now possible right from the UI since Docker for Mac Version 17.12.0-ce-mac49 (21995).

If you are getting the error: No space left on device

Configuring the qcow2 size cap is possible in the current versions:

# my disk is currently 64GiB
@hrbrmstr
hrbrmstr / orig.png
Last active July 16, 2023 06:43
Supreme Annotations - moar splainin here: http://rud.is/b/2016/03/16/supreme-annotations/ - NOTE: this requires the github version of ggplot2
orig.png
@audy
audy / Dockerfile
Last active November 6, 2017 18:40
PacBio SMRT Analysis Server in Docker
FROM centos
# following http://www.pacb.com/wp-content/uploads/2015/09/SMRT-Analysis-Software-Installation-v2.3.0.pdf
MAINTAINER harekrishna@gmail.com
ENV SMRT_ROOT=/opt/smrtanalysis/
ENV SMRT_USER=smrtanalysis
ENV SMRT_GROUP=smrtanalysis
@maximilian-lindsey
maximilian-lindsey / express_in_electron.md
Last active March 29, 2024 22:46
How to run Express inside an Electron app

How to run Express inside an Electron app

You can run your Express app very easily inside your Electron app.

All you need to do is to:

  • place all the files of your Express app inside a new app folder in your_electron_app\resources\app
  • reconfigure the app.js file
  • refactor some relative pathes in your Express app