ggirelli

'''
@author: Gabriele Girelli
@contact: gigi.ga90@gmail.com
'''

import re
from typing import Iterator, List, Optional, Pattern, Tuple


class MultiRange(object):

ggirelli

Keybase proof

I hereby claim:

• I am ggirelli on github.
• I am gggirelli (https://keybase.io/gggirelli) on keybase.
• I have a public key ASAU6K-iIjJnP-FZZ6_Hzvv5teH4HL24B_r35ePiSGPiXwo

To claim this, I am signing this object:

ggirelli

from typing import Dict, List, Tuple

City = str
Country = str
Institute = str
Lab = str
Language = str
LoveLevel = float
Program = str
Title = str

ggirelli

Hi-C processing workflow based on 4DN consortium pipeline

0. Dumping
1. Alignment
2. Parsing & sorting
3. Merging
4. Duplicates
5. Filtering
6. Cooler
7. Juicer

ggirelli

#!/usr/bin/env bash

# As hic files contain sparse matrices, the matrix size is usually smaller than the expected (especially at high resolutions)
# This needs straw to be installed, see here: https://github.com/aidenlab/straw

hic_file="SRR2184278-93.hic"
resolution=100000
chromosomes=($(seq 1 22) X Y)

if [ -f "$hic_file.chrom_size.tsv" ]; then

ggirelli

ggirelli

ggirelli

#! /bin/env bash

sinceDate="2023-02-01"
untilDate=$(date +%Y-%m-%d)
headerPattern='(\w+)(\(\w+\))?!?\: (.*)'
prefixPattern='[a-z0-9]+ [0-9-]+ '
typeGroupPattern='(feat|fix|revert|ci|docs|refactor|style|perf|test|chore)'

if [ ${#@} -gt 0 ]; then sinceDate=$1; fi
if [ ${#@} -gt 1 ]; then untilDate=$2; fi