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GitHub / jfnavarro / st_pipeline
ST Pipeline contains the tools and scripts needed to process and analyze the raw files generated with the Spatial Transcriptomics method in FASTQ format.
JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/jfnavarro%2Fst_pipeline
Stars: 45
Forks: 43
Open Issues: 3
License: other
Language: Python
Repo Size: 144 MB
Dependencies:
16
Created: almost 8 years ago
Updated: 7 months ago
Last pushed: about 3 years ago
Last synced: 7 months ago
Topics: pipeline, scrna-seq, spatial-transcriptomics, visium
Files
Dependencies
- HTSeq >=0.7.1
- argparse *
- cython >=0.19
- invoke *
- numpy *
- pandas *
- pympler *
- pysam >=0.7.4
- regex *
- scikit-learn *
- scipy *
- seaborn *
- setuptools *
- sqlitedict *
- taggd >=0.3.6