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The current `ananse view` isn't super helpful as it shows all content from all files, in order. So this would be a good enhancements!

Hi tzhu, I think something went wrong during your installation. If the installation works, the ananse version should start with `v0.3`. P.S. I have been trying to make ANANSE easier...

I'm sure the patch would work. The removed code included a `pass` statement in case pkg-conf didn't find hfd5 (the `except` doesn't include the error we get with Conda installed...

That would work, unless if the user installed pkg-config already... A clean solution would be define a flag like `CONDA_INSTALL = False` in your setup.py, and overwrite this with a...

Hey Ferdinand, This issue was fixed in ANANSE 0.4. Try updating! :)

Hey again @fmarletaz, The short answer: I think so. The long answer: during ananse network we compute scores for _every_ transcription factor-gene pair and put that all in one dataframe....

Hey liyangyang12, in ANANSE network, we connect the (putative) enhancer regions from the binding.h5 file to nearby genes from the gene annotation files. This error occurred because none of the...

Those warnings are from a dependency. The gtf is needed to convert to gene names, but i see your TFs match the BED and expression file 100%, so that should...

This also happens with nesting outside (but in combination with) rules. Here is a minimal example: ```python if True: def func1(): """this function will stay indented""" pass rule break_snakefmt_044: shell:...

Found the issue! It was a very silly coding mistake by me :o The fix is on the develop branch now. Install it with ```bash pip install git+https://github.com/vanheeringen-lab/ANANSE.git@develop ```