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vivekbhr
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packages/sincei/meta.yaml

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name: sincei
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description: |
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A user-friendly toolkit for QC, counting, clustering and plotting of single-cell (epi)genomics data
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sincei provides a flexible, easy-to-use command-line interface and python API to work with single-cell epigenomics data directly from BAM files. It can:
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- Aggregate signal in bins, genes or any feature of interest from single-cells.
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- Perform read-level and count-level quality control.
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- Perform dimensionality reduction and clustering of various types of single-cell data (open chromatin, histone marks, methylation etc..).
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- Create coverage files (bigwigs) for visualization.
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project_home: https://github.com/bhardwaj-lab/sincei
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documentation_home: https://sincei.readthedocs.io/en/latest/
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publications:
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- 10.5281/zenodo.8105536
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- 10.1101/2024.07.27.605424
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install:
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pypi: sincei
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tags:
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- epigenomics
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- single-cell
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- preprocessing
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- quality control
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- clustering
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- visualization
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- epigenomics
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- multi omics
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- BAM
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license: MIT
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version: 0.3.1
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version: 0.5
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authors:
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- vivekbhr
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- saroudant
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contact:
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- vivekbhr
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- fsanchogomez
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category: ecosystem
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test_command: |
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pip install ."[dev]" && pytest

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