https://github.com/ygidtu/trackplot

trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets.
https://github.com/ygidtu/trackplot

Keywords

bioinformatics genomics python

Last synced: 11 months ago
JSON representation

Acceptance Criteria

Revelant topics? true
External users? true
Open source license? true
Active? true
Fork? false

Repository metadata

trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets.

Host: GitHub
URL: https://github.com/ygidtu/trackplot
Owner: ygidtu
License: bsd-3-clause
Created: 2022-04-27T08:03:16.000Z (about 3 years ago)
Default Branch: main
Last Pushed: 2024-05-29T03:26:45.000Z (12 months ago)
Last Synced: 2024-05-29T16:31:09.841Z (12 months ago)
Topics: bioinformatics, genomics, python
Language: Python
Homepage: https://trackplot.readthedocs.io/
Size: 169 MB
Stars: 64
Watchers: 4
Forks: 8
Open Issues: 2
Releases: 0
Metadata Files:
- Readme: README.md
- License: LICENSE

Owner metadata

Name: BugWriter
Login: ygidtu
Email:
Kind: user
Description: Post-doc
Website:
Location: Chengdu
Twitter:
Company: Sichuan University
Icon url: https://avatars.githubusercontent.com/u/29178828?u=ce17d822fdfadc5a61d5ac8d57d81ec5b104acfc&v=4
Repositories: 7
Last ynced at: 2023-03-04T15:54:10.173Z
Profile URL: https://github.com/ygidtu

GitHub Events

Total

Create event: 15
Issues event: 7
Release event: 12
Watch event: 36
Delete event: 3
Issue comment event: 7
Push event: 73
Pull request event: 31
Fork event: 4

Last Year

Create event: 15
Delete event: 3
Fork event: 4
Issue comment event: 7
Issues event: 7
Pull request event: 31
Push event: 73
Release event: 12
Watch event: 36

Committers metadata

Last synced: over 1 year ago

Total Commits: 261
Total Committers: 3
Avg Commits per committer: 87.0
Development Distribution Score (DDS): 0.368

Commits in past year: 119
Committers in past year: 3
Avg Commits per committer in past year: 39.667
Development Distribution Score (DDS) in past year: 0.303

Name	Email	Commits
ygidtu	y**u@g**m	165
zhou-ran	r**5@g**m	85
Ran Zhou	1****n	11

Committer domains:

Issue and Pull Request metadata

Last synced: 11 months ago

Total issues: 8
Total pull requests: 88
Average time to close issues: 20 days
Average time to close pull requests: about 5 hours
Total issue authors: 6
Total pull request authors: 2
Average comments per issue: 3.5
Average comments per pull request: 0.0
Merged pull request: 84
Bot issues: 0
Bot pull requests: 0

Past year issues: 4
Past year pull requests: 11
Past year average time to close issues: about 14 hours
Past year average time to close pull requests: about 4 hours
Past year issue authors: 4
Past year pull request authors: 2
Past year average comments per issue: 2.0
Past year average comments per pull request: 0.0
Past year merged pull request: 11
Past year bot issues: 0
Past year bot pull requests: 0

More stats: https://issues.ecosyste.ms/repositories/lookup?url=https://github.com/ygidtu/trackplot

Top Issue Authors

ckuenne (2)
Puriney (2)
abishpius (1)
juliandwillett (1)
SarahNadeau (1)
sivasubramanics (1)

Top Pull Request Authors

zhou-ran (63)
ygidtu (25)

Top Issue Labels

Top Pull Request Labels

Package metadata

Total packages: 1
Total downloads:
- pypi: 159 last-month
Total docker downloads: 49
Total dependent packages: 0
Total dependent repositories: 0
Total versions: 22
Total maintainers: 1

pypi.org: trackplot

The trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and full-length sequencing datasets. https://sashimi.readthedocs.io/

Homepage:
Documentation: https://trackplot.readthedocs.io/
Licenses: BSD-3
Latest release: 0.3.7 (published over 1 year ago)
Last Synced: 2024-05-30T03:46:53.061Z (11 months ago)
Versions: 22
Dependent Packages: 0
Dependent Repositories: 0
Downloads: 159 Last month
Docker Downloads: 49
Rankings:
- Dependent packages count: 6.633%
- Downloads: 10.732%
- Stargazers count: 14.194%
- Average: 15.889%
- Forks count: 17.273%
- Dependent repos count: 30.611%
Maintainers (1)
- ygidtu

Dependencies

web/package.json npm

@vitejs/plugin-vue ^3.0.0 development
unplugin-auto-import ^0.11.1 development
unplugin-vue-components ^0.22.2 development
vite ^3.0.0 development
axios ^0.27.2
element-plus ^2.2.12
file-saver ^2.0.5
vue ^3.2.37
vue-cookies ^1.8.1
vue-router 4

Pipfile pypi

cairocffi *
click *
click-option-group *
filetype *
hicmatrix *
matplotlib *
numpy *
pandas *
pybigwig *
pysam *
requests *
rich *
seaborn *
xmltodict *

Pipfile.lock pypi

asciitree ==0.3.3
cairocffi ==1.3.0
certifi ==2022.6.15
cffi ==1.15.1
charset-normalizer ==2.1.0
click ==8.1.3
click-option-group ==0.5.3
commonmark ==0.9.1
cooler ==0.8.11
cycler ==0.11.0
cytoolz ==0.10.1
dill ==0.3.5.1
filetype ==1.1.0
fonttools ==4.34.4
h5py ==3.7.0
hicmatrix ==15
idna ==3.3
intervaltree ==3.1.0
kiwisolver ==1.4.4
matplotlib ==3.5.2
multiprocess ==0.70.13
numexpr ==2.8.3
numpy ==1.23.1
packaging ==21.3
pandas ==1.4.3
pillow ==9.2.0
pybigwig ==0.3.18
pycparser ==2.21
pyfaidx ==0.7.0
pygments ==2.12.0
pypairix ==0.3.7
pyparsing ==3.0.9
pysam ==0.19.1
python-dateutil ==2.8.2
pytz ==2022.1
pyyaml ==6.0
requests ==2.28.1
rich ==12.5.1
scipy ==1.8.1
seaborn ==0.11.2
setuptools ==63.2.0
simplejson ==3.17.6
six ==1.16.0
sortedcontainers ==2.4.0
tables ==3.7.0
toolz ==0.12.0
urllib3 ==1.26.10
xmltodict ==0.13.0

docs/requirements.txt pypi

mkdocs ==1.3.1

requirements.txt pypi

cairocffi >=1.3.0
certifi >=2022.6.15
cffi >=1.15.1
charset-normalizer >=2.1.0
click >=8.1.3
click-option-group >=0.5.3
commonmark >=0.9.1
cycler >=0.11.0
filetype >=1.1.0
fonttools >=4.34.4
idna >=3.3
kiwisolver >=1.4.4
matplotlib >=3.5.2
numpy *
packaging >=21.3
pandas *
pillow >=9.2.0
pybigwig >=0.3.18
pycparser >=2.21
pygments >=2.12.0
pyparsing >=3.0.9
pysam >=0.19.1
python-dateutil >=2.8.2
pytz >=2022.1
requests >=2.28.1
rich >=12.5.1
scipy *
seaborn >=0.11.2
six >=1.16.0
urllib3 >=1.26.10
xmltodict >=0.13.0

environment.yaml conda

adjusttext
cairocffi
click
click-option-group
filetype
hicmatrix
loguru
matplotlib-base
numpy
pandas
pip
pybigwig
pysam
python
requests
seaborn-base
xmltodict

Dockerfile docker

python 3.9-buster build

web/pnpm-lock.yaml npm

139 dependencies

bench/requirements.txt pypi

click *
cmdbench *
pysam *

poetry.lock pypi

adjusttext 0.7.3
asciitree 0.3.3
blosc2 2.0.0
cairocffi 1.5.1
certifi 2023.5.7
cffi 1.15.1
charset-normalizer 3.1.0
click 8.1.3
click-option-group 0.5.5
colorama 0.4.6
contourpy 1.0.7
cooler 0.9.1
cycler 0.11.0
cython 0.29.35
cytoolz 0.12.1
dill 0.3.6
filetype 1.2.0
fonttools 4.39.4
h5py 3.8.0
hicmatrix 15
idna 3.4
importlib-resources 5.12.0
intervaltree 3.1.0
kiwisolver 1.4.4
loguru 0.6.0
matplotlib 3.7.1
msgpack 1.0.5
multiprocess 0.70.14
numexpr 2.8.4
numpy 1.24.3
packaging 23.1
pandas 1.5.3
pillow 9.5.0
py-cpuinfo 9.0.0
pybigwig 0.3.22
pycparser 2.21
pyfaidx 0.7.2.1
pyparsing 3.0.9
pysam 0.21.0
python-dateutil 2.8.2
pytz 2023.3
pyyaml 6.0
requests 2.31.0
scipy 1.10.1
seaborn 0.12.2
setuptools 67.8.0
simplejson 3.19.1
six 1.16.0
sortedcontainers 2.4.0
tables 3.8.0
toolz 0.12.0
urllib3 2.0.2
win32-setctime 1.1.0
xmltodict 0.13.0
zipp 3.15.0

pyproject.toml pypi

adjusttext ^0.7.3
cairocffi ^1.4.0
click ^8.1.3
click-option-group ^0.5.5
filetype ^1.2.0
hicmatrix ^15
loguru ^0.6.0
matplotlib ^3.6.3
numpy ^1.24.1
pandas ^1.5.3
pybigwig ^0.3.18
pysam ^0.21.0
python >=3.8,<3.12
requests ^2.28.2
scipy ^1.10.0
seaborn ^0.12.2
xmltodict ^0.13.0

Score: 10.635374561412004

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