cytozip: index-free, chunk-compressed storage for scalable single-cell DNA methylation analysis
A scalable, cloud-native ecosystem for single-cell and population DNA methylation analysis
Installation
conda
https://anaconda.org/bioconda/cytozip
mamba install -c wubinding -c bioconda cytozip
# or
conda install -c wubinding -c bioconda cytozip
# -c wubinding is optional, which may be the latest version
pip
# Prerequisites (one of):
conda install -c bioconda htslib libdeflate samtools # recommended
# apt-get install libhts-dev libdeflate-dev samtools # Debian/Ubuntu
# brew install htslib libdeflate samtools # macOS
pip install cytozip
# or reinstall
pip uninstall -y cytozip && pip install git+http://github.com/DingWB/cytozip
Implementation
| allcools | ballcools | cytozip | |
|---|---|---|---|
| Format | .tsv.gz | .ballc | .cz |
| Compression algorithm | bgzip | bgzip | cytozip |
| Support Random Access ? | Yes | Yes | Yes |
| Need extra index file for query? | Yes | yes | No |
| Quickly Merge? | No | No | Yes |
Usage
Example dataset
https://figshare.com/articles/dataset/cytozip_example_data/32095567
1 maintainer
Metadata
1 maintainer
Release files for cytozip 0.4.1
For a detailed explanation of source distributions (sdists) and built distributions (wheels), please see the package formats documentation.
Source distribution (sdist)
| File | Size | Uploaded | |
|---|---|---|---|
| cytozip-0.4.1.tar.gz | 401.8 kB | Details |
Release files / cytozip-0.4.1.tar.gz
| Download URL | cytozip-0.4.1.tar.gz |
|---|---|
| Size | 401.8 kB |
| Tags | Source |
|
SHA-256 checksum How to use checksums |
2b142a35039505f7251fd9f578d648b456adea07414eb0f100fcf782b6251f84
|
|
BLAKE2b-256 checksum How to use checksums |
8deb46c7747b9c05f4f95a8aa64af9af917bf41b60422ae8c2f2d1c72554e8f7
|
| Upload date | |
|
Uploaded using Trusted Publishing? What is trusted publishing? |
No |
| Uploaded via |
twine/7.0.0 CPython/3.13.14
|
