Biotechnology and Botany
As part of some RNA-seq analysis I’ve been doing lately, I’ve been working a lot with compressed (gzip) files. Sometimes it’s handy to know what format the files are in. Of course, extracting a 2 gb file just to inspect … Read More »
Continuing with my Ubuntu optimisation theme lately, I wanted to create a shortcut to a few of my favourite sites on the desktop (like I am used to in Windows). After a bit of searching across this post on AskUbutu … Read More »
Some days you find something that just *works* and have to share it. Plus, posting it here will help me to remember it for next time. I had a bunch of PDF files for a manuscript I was preparing that … Read More »
I’ve been using a GE Healthcare ImageQuant LAS1000 – Luminescence Image Analyser at work lately and needed to colourise the .GEL files it produces, and save them as JPEG images. While ImageJ can open these .GEL files natively, I have … Read More »
I’ve recently had my laptop (up?)-graded to run Windows 10. The start menus search feature is great, however, the most annoying thing was having the results opened in Microsoft Edge, rather than my preferred browser. Thankfully, this article in How-To … Read More »
So you were in a hurry, you checked “Remember my choice for … links” then slapped “Don’t open”. Well done. Now you can never open that type link again. There are no easily findable settings in Chrome to reverse this … Read More »
As part of some image analysis work I’ve been doing, I need to sort a large number of images quickly. I did a previous bash script post on the same topic recently (here). The images were not as well curated … Read More »
WebPlotDigitizer (http://arohatgi.info/WebPlotDigitizer/ moved to https://automeris.io/WebPlotDigitizer/) is a free online, browser-based, open-source tool developed by Ankit Rohatgito to extract data from a wide variety of graphs and figures. Well worth checking out! There is also a downloadable version and R package … Read More »
I’ve been sorting/renaming a lot of images of Quinoa lately for plant phenotyping. To help with this, here is a small script. The idea is to create a folder structure into which photos can be dragged and dropped. The images … Read More »
I needed to cleanup a few sequences copied from various sources the other day, so I’ve made a small PHP tool to do it for me. Removes numbers, white space, formatting. Returns just the AGTC(and U)s in FASTA format. Adapted … Read More »