afrendeiro

#!/usr/bin/env python

"""
Max-reduce and stitch microscopy images into one stitched one.

Requirements:
`pip install numpy matplotlib tifffile`
"""

from pathlib import Path

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afrendeiro

import pandas as pd
import seaborn as sns


class Loc:
    def __init__(self, pandas_obj):
        self._obj = pandas_obj
    def __getitem__(self, x):
        return pd.Index(self._obj.index.to_frame().loc[x])

afrendeiro

#!/usr/bin/env python

"""
This script generates a transcriptome reference with additional
scaffolds/chromosomes for CRISPR gRNA constructs.
"""

import sys
import os
from argparse import ArgumentParser

afrendeiro

#!/usr/bin/env python


"""
This script creates reference genomes with mixtures of organisms/assemblies.
"""

import sys
import os
import argparse

afrendeiro

#!/usr/bin/bash

# This script details an example of how to create an validate a PDF/A
# compatible PDF file for submission as a thesi at the Medical University
# of Vienna

# It assumes in the working directory there are ${PAPER}.initial.pdf files
# that will make up your cumulative thesis

# The first cause of failure for PDF/A compatibility is the PDFs from your

afrendeiro

#!/usr/bin/env python

"""
ChIP-seq pipeline
"""

from argparse import ArgumentParser
import os
import sys
import logging

afrendeiro

import numpy as np
import pandas as pd
import matplotlib.pyplot as plt


def gini(x):
    # Mean absolute difference
    mad = np.abs(np.subtract.outer(x, x)).mean()
    # Relative mean absolute difference
    rmad = mad / np.mean(x)

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#! /usr/bin/env python


"""
Convert 10X FASTQ files to single end BAM file with barcodes annotated as tags
"""


from argparse import ArgumentParser
from glob import glob

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