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GitHub / clemente-lab / mmeds-meta

A database for storing and analyzing omics data

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/clemente-lab%2Fmmeds-meta

Stars: 2
Forks: 1
Open Issues: 91

License: None
Language: Python
Repo Size: 890 MB
Dependencies: 255

Created: over 6 years ago
Updated: 3 months ago
Last pushed: 3 months ago
Last synced: about 2 months ago

Topics: database, microbiome, microbiome-analysis, microbiome-data, python, sql-database

Files

Readme

Dependencies

setup.py pypi

cherrypy ==18.6.0
click ==7.1.2
codecov ==2.1.11
jaraco.classes ==3.2.1
jaraco.functools ==3.3.0
jaraco.text ==3.5.0
mongoengine ==0.23.0
nbformat *
numpy ==1.21.0
pandas ==1.2.3
pandoc ==2.0a4
pillow ==8.3.2
pint ==0.17
ppretty ==1.3
prettytable ==2.1.0
psutil ==5.8.0
pudb ==2021.1
pygments ==2.8.1
pymysql ==1.0.2
pytest-cov ==2.11.1
pytest-pudb ==0.7.0
python-Levenshtein ==0.12.2
pytidylib ==0.3.2
pyyaml ==5.4.1
rpy2 ==3.4.3
setuptools >=46.4.0
six ==1.15.0
tempora ==4.0.2
xlrd ==2.0.1

.github/workflows/tests.yml actions

actions/checkout v2 composite
actions/setup-python v2 composite
actions/upload-artifact v3 composite
codecov/codecov-action v2 composite

docs/environment.yml conda

_libgcc_mutex 0.1
_openmp_mutex 4.5
_r-mutex 1.0.1
argon2-cffi 20.1.0
async_generator 1.10
attrs 21.2.0
backcall 0.2.0
backports 1.0
backports.functools_lru_cache 1.6.4
binutils_impl_linux-64 2.36.1
binutils_linux-64 2.36
bleach 4.0.0
bwidget 1.9.14
bzip2 1.0.8
c-ares 1.17.2
ca-certificates 2021.5.30
cairo 1.16.0
cffi 1.14.6
curl 7.78.0
debugpy 1.4.1
decorator 5.0.9
defusedxml 0.7.1
entrypoints 0.3
font-ttf-dejavu-sans-mono 2.37
font-ttf-inconsolata 3.000
font-ttf-source-code-pro 2.038
font-ttf-ubuntu 0.83
fontconfig 2.13.1
fonts-conda-ecosystem 1
fonts-conda-forge 1
freetype 2.10.4
fribidi 1.0.10
gcc_impl_linux-64 9.4.0
gcc_linux-64 9.4.0
gettext 0.19.8.1
gfortran_impl_linux-64 9.4.0
gfortran_linux-64 9.4.0
graphite2 1.3.13
gsl 2.6
gxx_impl_linux-64 9.4.0
gxx_linux-64 9.4.0
harfbuzz 2.9.0
icu 68.1
importlib-metadata 4.6.4
ipykernel 6.2.0
ipython 7.26.0
ipython_genutils 0.2.0
jbig 2.1
jedi 0.18.0
jinja2 3.0.1
jpeg 9d
jsonschema 3.2.0
jupyter_client 6.1.12
jupyter_contrib_core 0.3.3
jupyter_contrib_nbextensions 0.5.1
jupyter_core 4.7.1
jupyter_highlight_selected_word 0.2.0
jupyter_latex_envs 1.4.6
jupyter_nbextensions_configurator 0.4.1
jupyterlab_pygments 0.1.2
kernel-headers_linux-64 2.6.32
krb5 1.19.2
ld_impl_linux-64 2.36.1
lerc 2.2.1
libblas 3.9.0
libcblas 3.9.0
libcurl 7.78.0
libdeflate 1.7
libedit 3.1.20191231
libev 4.33
libffi 3.3
libgcc-devel_linux-64 9.4.0
libgcc-ng 11.1.0
libgfortran-ng 11.1.0
libgfortran5 11.1.0
libglib 2.68.4
libgomp 11.1.0
libiconv 1.16
liblapack 3.9.0
libnghttp2 1.43.0
libopenblas 0.3.17
libpng 1.6.37
libsanitizer 9.4.0
libsodium 1.0.18
libssh2 1.9.0
libstdcxx-devel_linux-64 9.4.0
libstdcxx-ng 11.1.0
libtiff 4.3.0
libuuid 2.32.1
libwebp-base 1.2.1
libxcb 1.13
libxml2 2.9.12
libxslt 1.1.33
lxml 4.6.3
lz4-c 1.9.3
make 4.3
markupsafe 2.0.1
matplotlib-inline 0.1.2
mistune 0.8.4
nbclient 0.5.4
nbformat 5.1.3
ncurses 6.2
nest-asyncio 1.5.1
notebook 6.4.3
openssl 1.1.1k
packaging 21.0
pandoc 2.14.1
pandocfilters 1.4.2
pango 1.48.9
parso 0.8.2
pcre 8.45
pcre2 10.37
pexpect 4.8.0
pickleshare 0.7.5
pip 21.2.4
pixman 0.40.0
prometheus_client 0.11.0
prompt-toolkit 3.0.19
pthread-stubs 0.4
ptyprocess 0.7.0
pycparser 2.20
pyparsing 2.4.7
pyrsistent 0.17.3
python 3.8.10
python-dateutil 2.8.2
python_abi 3.8
pyyaml 5.4.1
pyzmq 22.2.1
r-assertthat 0.2.1
r-backports 1.2.1
r-base 4.1.1
r-brio 1.1.2
r-callr 3.7.0
r-cli 3.0.1
r-colorspace 2.0_2
r-crayon 1.4.1
r-desc 1.3.0
r-diffobj 0.3.4
r-digest 0.6.27
r-dplyr 1.0.7
r-ellipsis 0.3.2
r-evaluate 0.14
r-fansi 0.4.2
r-farver 2.1.0
r-forcats 0.5.1
r-generics 0.1.0
r-ggally 2.1.2
r-ggplot2 3.3.5
r-glue 1.4.2
r-gtable 0.3.0
r-hms 1.1.0
r-isoband 0.2.5
r-jsonlite 1.7.2
r-labeling 0.4.2
r-lattice 0.20_44
r-lifecycle 1.0.0
r-magrittr 2.0.1
r-mass 7.3_54
r-matrix 1.3_4
r-mgcv 1.8_36
r-munsell 0.5.0
r-nlme 3.1_152
r-pillar 1.6.2
r-pkgconfig 2.0.3
r-pkgload 1.2.1
r-plyr 1.8.6
r-praise 1.0.0
r-prettyunits 1.1.1
r-processx 3.5.2
r-progress 1.2.2
r-ps 1.6.0
r-purrr 0.3.4
r-r6 2.5.1
r-rcolorbrewer 1.1_2
r-rcpp 1.0.7
r-rematch2 2.1.2
r-reshape 0.8.8
r-rlang 0.4.11
r-rprojroot 2.0.2
r-rstudioapi 0.13
r-scales 1.1.1
r-testthat 3.0.4
r-tibble 3.1.3
r-tidyr 1.1.3
r-tidyselect 1.1.1
r-utf8 1.2.2
r-vctrs 0.3.8
r-viridislite 0.4.0
r-waldo 0.2.5
r-withr 2.4.2
readline 8.1
sed 4.8
send2trash 1.8.0
setuptools 57.4.0
sqlite 3.36.0
sysroot_linux-64 2.12
terminado 0.11.1
testpath 0.5.0
tk 8.6.11
tktable 2.10
tornado 6.1
traitlets 5.0.5
wcwidth 0.2.5
wheel 0.37.0
xorg-kbproto 1.0.7
xorg-libice 1.0.10
xorg-libsm 1.2.3
xorg-libx11 1.7.2
xorg-libxau 1.0.9
xorg-libxdmcp 1.1.3
xorg-libxext 1.3.4
xorg-libxrender 0.9.10
xorg-libxt 1.2.1
xorg-renderproto 0.11.1
xorg-xextproto 7.3.0
xorg-xproto 7.0.31
xz 5.2.5
yaml 0.2.5
zeromq 4.3.4
zipp 3.5.0
zlib 1.2.11
zstd 1.5.0