rnaseq mixture correction
Project description
RNAseqmixture
A python module to correct (ajust/deconvolute) for contamination of primary cell RNAseq with other cell types (eg. Macrophages).
No RNAseq of primary cells is pure - there are always other cell types sequenced within your sample. Given your purest sample(s) (=reference) and samples consisting just of the likely contaminations, this module attempts to correct for the contamination.
How much contamination is present is assessed based on a number of genes that are specific for your contamination - they should not show any expression in the pure reference.
For details see, Reinartz, Finkernagel et al., Genome Biol . 2016 May 23;17(1):108. doi: 10.1186/s13059-016-0956-6. A transcriptome-based global map of signaling pathways in the ovarian cancer microenvironment associated with clinical outcome
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distributions
Built Distribution
File details
Details for the file rnaseqmixture-0.1.0-py3-none-any.whl.
File metadata
- Download URL: rnaseqmixture-0.1.0-py3-none-any.whl
- Upload date:
- Size: 6.3 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/3.2.0 pkginfo/1.5.0.1 requests/2.24.0 setuptools/44.0.0 requests-toolbelt/0.9.1 tqdm/4.50.1 CPython/3.8.6
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | 85186b2c73d177ed8d0a6a4c2005598b0e24c3c96088df6b49d9852d22c68374 |
|
| MD5 | 0c37371e6181e8e30f41d45b58156816 |
|
| BLAKE2b-256 | 82f26905d0a56059cbf15d11e9ccdc06227c357513463d9e0b68e46c33a6ed0c |
