NucleoATAC
nucleosome calling using ATAC-seq
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Download Latest Version (.zip)- nucleoatac
- pyatac
- faq.md
- index.md
- installation.md
- nucleoatac.md
- pyatac.md
- example.fragmentsizes.txt
- example.ins.bedgraph.gz
- example.ins.bedgraph.gz.tbi
- example.nfrpos.bed.gz
- example.nfrpos.bed.gz.tbi
- example.nuc_dist.eps
- example.nuc_dist.txt
- example.nucleoatac_signal.bedgraph.gz
- example.nucleoatac_signal.bedgraph.gz.tbi
- example.nucleoatac_signal.smooth.bedgraph.gz
- example.nucleoatac_signal.smooth.bedgraph.gz.tbi
- example.nucmap_combined.bed.gz
- example.nucmap_combined.bed.gz.tbi
- example.nucpos.bed.gz
- example.nucpos.bed.gz.tbi
- example.nucpos.redundant.bed.gz
- example.nucpos.redundant.bed.gz.tbi
- example.occ.bedgraph.gz
- example.occ.bedgraph.gz.tbi
- example.occ.lower_bound.bedgraph.gz
- example.occ.lower_bound.bedgraph.gz.tbi
- example.occ.upper_bound.bedgraph.gz
- example.occ.upper_bound.bedgraph.gz.tbi
- example.occ_fit.eps
- example.occ_fit.txt
- example.occpeaks.bed.gz
- example.occpeaks.bed.gz.tbi
- example.VMat
- example.VMat.eps
- README.txt
- example.bam
- example.bam.bai
- example.bed
- example.Scores.bedgraph.gz
- example.Scores.bedgraph.gz.tbi
- example.slopped.bed
- example.VMat
- README.txt
- sacCer3.fa
- sacCer3.fa.fai
- single_read.bam
- single_read.bam.bai
- __init__.py
- standard_vplot.VMat
- __init__.py
- cli.py
- diff_occ.py
- Magic.py
- merge.py
- multinomial_cov.pyx
- NFRCalling.py
- NucleosomeCalling.py
- Occupancy.py
- run_nfr.py
- run_nuc.py
- run_occ.py
- run_vprocess.py
- __init__.py
- Human.PWM.txt
- Human2.PWM.txt
- Yeast.PWM.txt
- __init__.py
- bedgraph.py
- bias.py
- chunk.py
- chunkmat2d.py
- cli.py
- fragments.pyx
- fragments.pyxbld
- fragmentsizes.py
- get_counts.py
- get_cov.py
- get_ins.py
- get_nucleotide.py
- get_pwm.py
- get_sizes.py
- Magic.py
- make_bias_track.py
- make_bias_vplot.py
- make_vplot.py
- seq.py
- signal_around_sites.py
- tracks.py
- utils.py
- VMat.py
- __init__.py
- test_chunkmat2d.py
- test_cli.py
- test_occupancy.py
- test_tracks.py
- test_utils.py
- test_var.py
- test_xcor.py
- .gitignore
- .travis.yml
- LICENSE
- MANIFEST.in
- mkdocs.yml
- README.md
- setup.cfg
- setup.py
- tests.py
# Installation Guide
1. Get the code
git clone https://github.com/GreenleafLab/NucleoATAC
Downloads the entire project code from GitHub to your computer.
cd NucleoATAC
Moves into the project folder you just downloaded.
2. Python
Easy RecommendedPrerequisites
pip install .
Installs the package published on PyPI directly โ no need to clone the source.
python <์คํํ ํ์ผ๋ช
>.py # README์์ ์ ํํ ์คํ ํ์ผ๋ช
์ ํ์ธํ์ธ์
Runs the Python script (or module).
If it runs without errors and prints output in the terminal, it worked.
// repository documentation
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