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GitHub / nlm-irp-jianglab / bioinfo-wwbe

💧 Bioinformatic pipeline for wastewater-based epidemiology project

JSON API: https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/nlm-irp-jianglab%2Fbioinfo-wwbe

Stars: 0
Forks: 1
Open Issues: 0

License: None
Language: Jupyter Notebook
Repo Size: 620 KB
Dependencies: 162

Created: over 1 year ago
Updated: over 1 year ago
Last pushed: about 1 year ago
Last synced: 8 months ago

Files

Readme

Dependencies

environment.yml conda

_libgcc_mutex 0.1
_openmp_mutex 4.5
alsa-lib 1.2.7.2
bc 1.07.1
boost-cpp 1.74.0
brotli 1.0.9
brotli-bin 1.0.9
brotlipy 0.7.0
bwa 0.7.17
bzip2 1.0.8
c-ares 1.18.1
ca-certificates 2022.6.15.1
cairo 1.16.0
certifi 2022.6.15.1
cffi 1.15.1
charset-normalizer 2.1.1
click 8.1.3
colorama 0.4.5
cryptography 37.0.4
cvxpy 1.2.1
cvxpy-base 1.2.1
cycler 0.11.0
ecos 2.0.10
expat 2.4.8
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 2.14.0
fonts-conda-ecosystem 1
fonts-conda-forge 1
fonttools 4.37.1
freetype 2.12.1
freyja 1.3.10
gettext 0.19.8.1
giflib 5.2.1
graphite2 1.3.13
harfbuzz 5.1.0
htslib 1.14
icu 70.1
idna 3.3
isa-l 2.30.0
ivar 1.3.1
joblib 1.1.0
jpeg 9e
keyutils 1.6.1
kiwisolver 1.4.4
krb5 1.19.3
lcms2 2.12
ld_impl_linux-64 2.36.1
lerc 3.0
libblas 3.9.0
libbrotlicommon 1.0.9
libbrotlidec 1.0.9
libbrotlienc 1.0.9
libcblas 3.9.0
libcbor 0.9.0
libcups 2.3.3
libcurl 7.83.1
libdeflate 1.10
libedit 3.1.20191231
libev 4.33
libffi 3.4.2
libfido2 1.11.0
libgcc-ng 12.1.0
libgfortran-ng 12.1.0
libgfortran5 12.1.0
libglib 2.72.1
libgomp 12.1.0
libiconv 1.16
liblapack 3.9.0
libnghttp2 1.47.0
libnsl 2.0.0
libopenblas 0.3.21
libpng 1.6.37
libprotobuf 3.18.1
libsqlite 3.39.3
libssh2 1.10.0
libstdcxx-ng 12.1.0
libtiff 4.4.0
libudev1 249
libuuid 2.32.1
libwebp-base 1.2.4
libxcb 1.13
libzlib 1.2.12
lofreq 2.1.5
mafft 7.505
matplotlib-base 3.5.3
mpi 1.0
munkres 1.0.7
mysql-connector-c 6.1.11
ncurses 6.3
numpy 1.23.3
openjdk 17.0.3
openjpeg 2.5.0
openmpi 4.1.2
openssh 9.0p1
openssl 1.1.1q
osqp 0.6.2.post0
packaging 21.3
pandas 1.4.4
pcre 8.45
perl 5.32.1
pillow 9.2.0
pip 22.2.2
pixman 0.40.0
plotly 5.10.0
pthread-stubs 0.4
pycparser 2.21
pyopenssl 22.0.0
pyparsing 3.0.9
pysocks 1.7.1
python 3.9.13
python-dateutil 2.8.2
python_abi 3.9
pytz 2022.2.1
pyvcf 0.6.8
pyyaml 6.0
qdldl-python 0.1.5
readline 8.1.2
requests 2.28.1
samtools 1.15
scipy 1.9.1
scs 3.2.0
setuptools 65.3.0
six 1.16.0
snpeff 5.0
sqlite 3.39.3
tabixpp 1.1.0
tenacity 8.0.1
tk 8.6.12
tqdm 4.64.1
tzdata 2022c
ucsc-fatovcf 426
unicodedata2 14.0.0
urllib3 1.26.11
usher 0.5.6
vcflib 1.0.3
vcftools 0.1.16
wheel 0.37.1
xorg-fixesproto 5.0
xorg-inputproto 2.3.2
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-libxfixes 5.0.3
xorg-libxi 1.7.10
xorg-libxrender 0.9.10
xorg-libxtst 1.2.3
xorg-recordproto 1.14.2
xorg-renderproto 0.11.1
xorg-xextproto 7.3.0
xorg-xproto 7.0.31
xz 5.2.6
yaml 0.2.5
zlib 1.2.12
zstd 1.5.2

Dockerfile docker

condaforge/mambaforge latest build