diff options
author | Frederick Muriuki Muriithi | 2021-09-16 11:35:23 +0300 |
---|---|---|
committer | Frederick Muriuki Muriithi | 2021-09-16 11:35:23 +0300 |
commit | 78e37440844a0397d29135a8ba215e54fd92c86d (patch) | |
tree | 2a8d7726db3516c20bb9159c46c0875b158e2f42 /gn3 | |
parent | 347301c1bc60ba5036625364ee48a5d72eeb1186 (diff) | |
download | genenetwork3-78e37440844a0397d29135a8ba215e54fd92c86d.tar.gz |
Add missing imports
Issue:
https://github.com/genenetwork/gn-gemtext-threads/blob/main/topics/gn1-migration-to-gn2/clustering.gmi
* Add missing imports that are needed in the code.
Diffstat (limited to 'gn3')
-rw-r--r-- | gn3/heatmaps.py | 14 |
1 files changed, 12 insertions, 2 deletions
diff --git a/gn3/heatmaps.py b/gn3/heatmaps.py index 4349ee0..c48a2d3 100644 --- a/gn3/heatmaps.py +++ b/gn3/heatmaps.py @@ -5,15 +5,25 @@ generate various kinds of heatmaps. from functools import reduce from gn3.settings import TMPDIR +import plotly.graph_objects as go +from gn3.random import random_string from typing import Any, Dict, Sequence from gn3.computations.slink import slink -from gn3.computations.qtlreaper import generate_traits_file +from plotly.subplots import make_subplots from gn3.computations.correlations2 import compute_correlation -from gn3.db.genotypes import build_genotype_file, load_genotype_samples +from gn3.db.genotypes import ( + build_genotype_file, load_genotype_samples, parse_genotype_file) from gn3.db.traits import ( retrieve_trait_data, retrieve_trait_info, generate_traits_filename) +from gn3.computations.qtlreaper import ( + run_reaper, + generate_traits_file, + chromosome_sorter_key_fn, + parse_reaper_main_results, + organise_reaper_main_results, + parse_reaper_permutation_results) def export_trait_data( trait_data: dict, strainlist: Sequence[str], dtype: str = "val", |