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Mikko Heikkinen mikkohei13

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@mikkohei13
mikkohei13 / WBC.sorbusBerriesAtCensus-1990-2021
Last active January 13, 2022 19:42
Lähde:
Talvilintulaskenta - http://tun.fi/HR.39 [metadata], Creative Commons Nimeä
Aineistolataus Lajitietokeskuksesta http://tun.fi/HBF.59676
id yearDecember WBC.sorbusBerriesAtCensus
http://tun.fi/JX.100009 1990 1
http://tun.fi/JX.100131 1990 1
http://tun.fi/JX.100396 1990 1
http://tun.fi/JX.100605 1990 1
http://tun.fi/JX.100902 1990 2
@mikkohei13
mikkohei13 / winterbird-berry-index
Last active January 14, 2022 13:31
# Code courtesy of William Morris
# Requires setting your personal token, and installing this:
# apt-get install libcurl4-openssl-dev libssl-dev
install.packages("finbif")
install.packages("ggplot2")
library(finbif)
library(ggplot2)
@mikkohei13
mikkohei13 / handle_birdnet_csv.py
Last active June 26, 2022 07:46
Tool to concatenate and extend BirdNET CSV files
import os
import pandas as pd
import datetime
import re
def get_datafile_list(directory, limit):
datafile_list = []
objects = os.listdir(directory)
i = 0
@mikkohei13
mikkohei13 / crop.py
Created November 23, 2022 12:42
Crop images in a folder
import os
from os import listdir
from PIL import Image
# get the path/directory
source_dir = "images/Carpocoris_fuscispinus"
target_dir = "images/carp_fusc_crop"
limit = 300
@mikkohei13
mikkohei13 / inat-sound.py
Created February 6, 2023 14:11
Python script to fetch sound files from iNaturalist API
'''
Script to download sound files from iNaturalist.
Mikko Heikkinen / Luomus, 2023-02-06
Requires "requests" library.
input: iNat API URL with parameters
output: files divided into folders by taxon
@mikkohei13
mikkohei13 / minimaps.py
Last active February 12, 2023 09:09
Generates small PNG maps of Finland with a dot at given coordinates.
# Generates small maps of Finland with a dot at given coordinates.
import geopandas as gpd
import matplotlib.pyplot as plt
from pyproj import Proj, transform
# Load a GeoJSON file with outline of Finland into a GeoDataFrame
geojson = gpd.read_file('fin.geojson')
@mikkohei13
mikkohei13 / finland_simple_outline.geojson
Created February 11, 2023 22:10
GeoJSON file of the outline of Finland, simplified for very small maps.
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@mikkohei13
mikkohei13 / birdatlas-treevolume.csv
Created February 13, 2023 16:45
Data from Finnish bird atlas: observations with 100 m accuracy compared to tree volume data (gaussian filtered) from Luke. Data CC-BY 4.0.
We can make this file beautiful and searchable if this error is corrected: It looks like row 2 should actually have 1 column, instead of 13 in line 1.
fid;common_name_finnish;count;unique;min;max;range;sum;mean;median;stddev;minority;majority;q1;q3;iqr
187;tulipäähippiäinen;1;1;255,7875214;255,79;0,00;255,79;255,79;255,79;0,00;255,79;255,7875214;255,79;255,79;0,00
201;puukiipijät;1;1;235,3859253;235,39;0,00;235,39;235,39;235,39;0,00;235,39;235,3859253;235,39;235,39;0,00
222;hömötiainen × lapintiainen;1;1;210,9716034;210,97;0,00;210,97;210,97;210,97;0,00;210,97;210,9716034;210,97;210,97;0,00
175;pikkusieppo;29;29;79,25;303,37;224,11;5629,43;194,12;185,46;64,38;79,25;79,25;148,34;245,10;96,77
180;kanahaukka (alalaji gentilis);1;1;165,2255707;165,23;0,00;165,23;165,23;165,23;0,00;165,23;165,2255707;165,23;165,23;0,00
195;idänuunilintu;13;13;9,39;293,14;283,74;2079,52;159,96;175,33;79,21;9,39;9,39;104,69;209,42;104,73
8;hippiäinen;376;359;0,00;354,92;354,92;54432,47;144,77;142,78;77,85;0,67;0,00;94,62;193,35;98,73
82;peukaloinen;353;347;0,00;357,88;357,88;50821,14;143,97;144,19;76,40;0,02;0,00;90,73;198,19;107,46
69;sirittäjä;190;188;0,00;318,41;318,41;27312,49
@mikkohei13
mikkohei13 / weekly_species_charts.py
Created June 1, 2023 08:34
Script reads laji.fi citatable data file, and creates Excel file and a line chart of weekly species distribution.
import pandas as pd
import matplotlib.pyplot as plt
# Load the csv file
df = pd.read_csv('rows_HBF.75704.tsv', sep='\t')
# Remove those without a day of year
df = df.dropna(subset=['Gathering.Conversions.DayOfYearBegin'])
@mikkohei13
mikkohei13 / weekly_species_heatmaps.py
Created June 1, 2023 08:39
Script reads laji.fi data file, and a heatmap of weekly species distribution.
import pandas as pd
import seaborn as sns
import matplotlib.pyplot as plt
from sklearn.preprocessing import MinMaxScaler
rarity_threshold = 100
# Read datafile that has number of observations for each species
df = pd.read_csv('species_rarity.csv', sep='\t')