netZooPy

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Panda preprocessing expression

7

In Panda preprocessing there was a problem with indices. Using gene2idx.get(x, 0) always give you the index 0 if x is missing from gene2idx.get (like a gene in gene expression...

michelegentili93

Fix single/double precision

1

violafanfani

Lioness indices

2

Feature request by @talkhanz to add an argument in lioness to produce a set of noncontinuous samples for example [4,5,10] as opposed to start and end arguments that produce all...

marouenbg

Add flag for lioness where we can run lioness with all samples as background, but computes lioness on a subset of samples. Right now start and end are used only...

violafanfani

currently, PUMA mir argument requires a filepath but this should facilitate a pandas dataframe as well

talkhanz

LionessPuma issue: compute_puma() missing 1 required positional argument: 'sorted_index'

1

``` from netZooPy.panda.panda import Panda from netZooPy.puma.puma import Puma from netZooPy.lioness.lioness import Lioness from netZooPy.lioness.lioness_for_puma import LionessPuma import pandas as pd import os from io import StringIO import sys class...

talkhanz

added lioness dragon impl and test outline

1

katehoffshutta

PUMA's description missing in README file

marouenbg

There is a ligress folder in netZoopy/netZoopy which should be Bonobo instead

marouenbg

Add otter

2

- solving a small bug in LIONESS CLI - Adding a class to deal with otter - CLI for otter and lionessotter

violafanfani