Installed Applications: 2021b

Applications available on the BEAR systems (BlueBEAR, BEARCloud VMs, and CaStLeS VMs). In any one job, or session, you should use applications from only one BEAR Apps Version.

Application Version
adjustText 0.7.3-foss-2021b
alsa-lib 1.2.7.2
ant 1.10.11-Java-11
Arrow 6.0.0-foss-2021b
arrow-R 6.0.0.2-foss-2021b-R-4.2.0
arrow-R 6.0.0.2-foss-2021b-R-4.1.2
ArviZ 0.11.4-foss-2021b
ATK 2.36.0-GCCcore-11.2.0
at-spi2-atk 2.38.0-GCCcore-11.2.0
at-spi2-core 2.40.3-GCCcore-11.2.0
Autoconf 2.71-GCCcore-11.2.0
Automake 1.16.4-GCCcore-11.2.0
Autotools 20210726-GCCcore-11.2.0
BamTools 2.5.2-GCC-11.2.0
barrnap 0.9-gompi-2021b
Bazel 3.7.2-GCCcore-11.2.0
bcbio-gff 0.6.9-foss-2021b
BEAR-Python-MSc-Bioinformatics 2021b-foss-2021b
BEAR-R-bio 2021b-foss-2021b-R-4.2.0
BeautifulSoup 4.10.0-GCCcore-11.2.0
BEDTools 2.30.0-GCC-11.2.0
betapart 1.5.6-foss-2021b-R-4.2.0
binutils 2.37-GCCcore-11.2.0
binutils 2.37
biom-format 2.1.12-foss-2021b
Biopython 1.79-foss-2021b
BioServices 1.10.1-foss-2021b
Bison 3.8.2
Bison 3.7.6-GCCcore-11.2.0
BLAST+ 2.12.0-gompi-2021b
Blender 3.2.0-linux-x64
BLIS 0.8.1-GCC-11.2.0
Boost 1.77.0-GCC-11.2.0
boto3 1.20.13-GCCcore-11.2.0
Brotli 1.0.9-GCCcore-11.2.0
bzip2 1.0.8-GCCcore-11.2.0
cairo 1.16.0-GCCcore-11.2.0
CIRI-long 1.1.0-foss-2021b
cma 3.2.2-foss-2021b
CMake 3.22.1-GCCcore-11.2.0
CMake 3.21.1-GCCcore-11.2.0
CMSeq 1.0.4-foss-2021b
corner 2.2.1-foss-2021b
cppy 1.1.0-GCCcore-11.2.0
CUDA 11.4.1
cuDNN 8.2.2.26-CUDA-11.4.1
cURL 7.78.0-GCCcore-11.2.0
cutadapt 4.1-GCCcore-11.2.0
DB 18.1.40-GCCcore-11.2.0
DBus 1.13.18-GCCcore-11.2.0
DCC 0.5.0-foss-2021b
DendroPy 4.5.2-GCCcore-11.2.0
DIAMOND 2.0.13-GCC-11.2.0
double-conversion 3.1.5-GCCcore-11.2.0
Doxygen 1.9.1-GCCcore-11.2.0
DRAM 1.3.6-foss-2021b
edlib 1.3.9-GCC-11.2.0
Eigen 3.3.9-GCCcore-11.2.0
ELPA 2021.05.001-foss-2021b
expat 2.4.1-GCCcore-11.2.0
FastTree 2.1.11-GCCcore-11.2.0
FFmpeg 4.3.2-GCCcore-11.2.0
FFTW 3.3.10-gompi-2021b
FLAC 1.3.3-GCCcore-11.2.0
flatbuffers 2.0.0-GCCcore-11.2.0
flatbuffers-python 2.0-GCCcore-11.2.0
flex 2.6.4-GCCcore-11.2.0
flex 2.6.4
FlexiBLAS 3.0.4-GCC-11.2.0
fontconfig 2.13.94-GCCcore-11.2.0
foss 2021b
freetype 2.11.0-GCCcore-11.2.0
FriBidi 1.0.10-GCCcore-11.2.0
GCC 11.2.0
GCCcore 11.2.0
GDAL 3.3.2-foss-2021b
Gdk-Pixbuf 2.42.6-GCCcore-11.2.0
gdm 1.5.0-3-foss-2021b-R-4.2.0
GDRCopy 2.3-GCCcore-11.2.0
GEOS 3.9.1-GCC-11.2.0
gettext 0.21-GCCcore-11.2.0
gettext 0.21
Ghostscript 9.54.0-GCCcore-11.2.0
giflib 5.2.1-GCCcore-11.2.0
git 2.33.1-GCCcore-11.2.0-nodocs
GLib 2.69.1-GCCcore-11.2.0
GLPK 5.0-GCCcore-11.2.0
GMP 6.2.1-GCCcore-11.2.0
GObject-Introspection 1.68.0-GCCcore-11.2.0
gompi 2021b
gperf 3.1-GCCcore-11.2.0
gprofiler-official 1.0.0-foss-2021b
graphite2 1.3.14-GCCcore-11.2.0
Graphviz 2.50.0-GCCcore-11.2.0
graphviz 0.20.1-foss-2021b
groff 1.22.4-GCCcore-11.2.0
Groovy 4.0.3-Java-11
GSL 2.7-GCC-11.2.0
GTK3 3.24.31-GCCcore-11.2.0
GTS 0.7.6-GCCcore-11.2.0
gzip 1.10-GCCcore-11.2.0
h5py 3.6.0-foss-2021b
HarfBuzz 2.8.2-GCCcore-11.2.0
HDF 4.2.15-GCCcore-11.2.0
HDF5 1.12.1-gompi-2021b
help2man 1.48.3-GCCcore-11.2.0
HMMER 3.3.2-gompi-2021b
HPL 2.3-foss-2021b
HTSeq 0.11.3-foss-2021b
HTSlib 1.14-GCC-11.2.0
hwloc 2.5.0-GCCcore-11.2.0
hypothesis 6.14.6-GCCcore-11.2.0
ICU 69.1-GCCcore-11.2.0
ImageMagick 7.1.0-4-GCCcore-11.2.0
inferCNV 1.12.0-foss-2021b-R-4.2.0
intermine 1.13.0-GCCcore-11.2.0
intltool 0.51.0-GCCcore-11.2.0
ioh 0.3.2.8.3-foss-2021b
IPython 7.26.0-GCCcore-11.2.0
IQ-TREE 2.2.1-gompi-2021b
IRkernel 1.3-foss-2021b-R-4.2.0
ISA-L 2.30.0-GCCcore-11.2.0
JAGS 4.3.0-foss-2021b
JasPer 2.0.33-GCCcore-11.2.0
Java 11.0.2
jax 0.3.13-foss-2021b-CUDA-11.4.1
jax 0.3.13-foss-2021b
jbigkit 2.1-GCCcore-11.2.0
jemalloc 5.2.1-GCCcore-11.2.0
JsonCpp 1.9.4-GCCcore-11.2.0
JupyterLab 3.1.6-GCCcore-11.2.0
Kraken2 2.1.2-gompi-2021b
LAME 3.100-GCCcore-11.2.0
lftp 4.9.2-GCCcore-11.2.0
libarchive 3.5.1-GCCcore-11.2.0
libdrm 2.4.107-GCCcore-11.2.0
libepoxy 1.5.8-GCCcore-11.2.0
libevent 2.1.12-GCCcore-11.2.0
libfabric 1.13.2-GCCcore-11.2.0
libffi 3.4.2-GCCcore-11.2.0
libgd 2.3.3-GCCcore-11.2.0
libgeotiff 1.7.0-GCCcore-11.2.0
libgit2 1.1.1-GCCcore-11.2.0
libGLU 9.0.2-GCCcore-11.2.0
libglvnd 1.3.3-GCCcore-11.2.0
libiconv 1.16-GCCcore-11.2.0
libidn2 2.3.2-GCCcore-11.2.0
libjpeg-turbo 2.0.6-GCCcore-11.2.0
libogg 1.3.5-GCCcore-11.2.0
libpciaccess 0.16-GCCcore-11.2.0
libpng 1.6.37-GCCcore-11.2.0
libreadline 8.1-GCCcore-11.2.0
libsndfile 1.0.31-GCCcore-11.2.0
libsodium 1.0.18-GCCcore-11.2.0
LibTIFF 4.3.0-GCCcore-11.2.0
libtirpc 1.3.2-GCCcore-11.2.0
libtool 2.4.6-GCCcore-11.2.0
libunwind 1.5.0-GCCcore-11.2.0
libvorbis 1.3.7-GCCcore-11.2.0
libwebp 1.2.0-GCCcore-11.2.0
libxc 5.1.6-GCC-11.2.0
libxml2 2.9.10-GCCcore-11.2.0
libxslt 1.1.34-GCCcore-11.2.0
libyaml 0.2.5-GCCcore-11.2.0
LittleCMS 2.12-GCCcore-11.2.0
LLVM 12.0.1-GCCcore-11.2.0
LMDB 0.9.29-GCCcore-11.2.0
LSD2 2.3-GCCcore-11.2.0
lxml 4.6.3-GCCcore-11.2.0
lz4 1.9.3-GCCcore-11.2.0
M4 1.4.19-GCCcore-11.2.0
M4 1.4.19
MAFFT 7.490-gompi-2021b-with-extensions
Mako 1.1.4-GCCcore-11.2.0
MATLAB 2022a
matplotlib 3.4.3-foss-2021b
Mesa 21.1.7-GCCcore-11.2.0
Meson 0.58.2-GCCcore-11.2.0
MetaPhlAn 3.0.14-foss-2021b
minimap2 2.24-GCCcore-11.2.0
mlxtend 0.19.0-foss-2021b
MMseqs2 13-45111-gompi-2021b
monocle 2.24.1-foss-2021b-R-4.2.0
MPFR 4.1.0-GCCcore-11.2.0
MUSCLE 5.1-GCCcore-11.2.0
NASM 2.15.05-GCCcore-11.2.0
NCCL 2.10.3-GCCcore-11.2.0-CUDA-11.4.1
ncurses 6.2-GCCcore-11.2.0
ncurses 6.2
netCDF 4.8.1-gompi-2021b
netcdf4-python 1.5.7-foss-2021b
nettle 3.7.3-GCCcore-11.2.0
networkx 2.6.3-foss-2021b
Nextflow 22.04.0
Ninja 1.10.2-GCCcore-11.2.0
NLopt 2.7.0-GCCcore-11.2.0
NLTK 3.7-foss-2021b
nodejs 14.17.6-GCCcore-11.2.0
NSPR 4.32-GCCcore-11.2.0
NSS 3.69-GCCcore-11.2.0
nsync 1.24.0-GCCcore-11.2.0
numactl 2.0.14-GCCcore-11.2.0
numpyro 0.9.2-foss-2021b-CUDA-11.4.1
numpyro 0.9.2-foss-2021b
OpenBLAS 0.3.18-GCC-11.2.0
OpenCV 4.5.5-foss-2021b-contrib
OpenEXR 3.1.1-GCCcore-11.2.0
OpenMPI 4.1.1-GCC-11.2.0
OpenPGM 5.2.122-GCCcore-11.2.0
OpenSSL 1.1
Optuna 2.10.0-foss-2021b
OSU-Micro-Benchmarks 5.7.1-gompi-2021b
ottr 1.2.0-foss-2021b-R-4.2.0
Pandoc 2.13
Pango 1.48.8-GCCcore-11.2.0
parallel 20210722-GCCcore-11.2.0
PCRE 8.45-GCCcore-11.2.0
PCRE2 10.37-GCCcore-11.2.0
Perl 5.34.0-GCCcore-11.2.0
PhitestR 0.2.0-foss-2021b-R-4.2.0
PhyloPhlAn 3.0.2-foss-2021b
Pillow 8.3.2-GCCcore-11.2.0
pixman 0.40.0-GCCcore-11.2.0
pkgconf 1.8.0
pkg-config 0.29.2-GCCcore-11.2.0
pkg-config 0.29.2
pkgconfig 1.5.5-GCCcore-11.2.0-python
plotly.py 5.4.0-GCCcore-11.2.0
PMIx 4.1.0-GCCcore-11.2.0
PostgreSQL 13.4-GCCcore-11.2.0
prodigal 2.6.3-GCCcore-11.2.0
PROJ 8.1.0-GCCcore-11.2.0
protobuf 3.17.3-GCCcore-11.2.0
protobuf-python 3.17.3-GCCcore-11.2.0
pybedtools 0.8.2-GCC-11.2.0
pyBigWig 0.3.18-foss-2021b
pybind11 2.7.1-GCCcore-11.2.0
pyhpo 3.1.2-foss-2021b
pymoo 0.6.0-foss-2021b
Pysam 0.18.0-GCC-11.2.0
Pysam 0.17.0-GCC-11.2.0
pyspoa 0.0.8-GCC-11.2.0
pytest-xdist 2.5.0-GCCcore-11.2.0
Python 3.9.6-GCCcore-11.2.0-bare
Python 3.9.6-GCCcore-11.2.0
Python 2.7.18-GCCcore-11.2.0-bare
python-isal 0.11.1-GCCcore-11.2.0
python-Levenshtein 0.12.2-foss-2021b
PyYAML 5.4.1-GCCcore-11.2.0
Qhull 2020.2-GCCcore-11.2.0
Qt5 5.15.2-GCCcore-11.2.0
QuantumESPRESSO 7.0-foss-2021b
QuPath 0.3.2-Java-11
R 4.2.0-foss-2021b
R 4.1.2-foss-2021b
RapidJSON 1.1.0-GCCcore-11.2.0
R-bundle-Bioconductor 3.15-foss-2021b-R-4.2.0
R-bundle-Bioconductor 3.14-foss-2021b-R-4.1.2
RE2 2022-02-01-GCCcore-11.2.0
re2c 2.2-GCCcore-11.2.0
Redis 6.2.6-GCC-11.2.0
rjags 4-13-foss-2021b-R-4.2.0
RStudio-Server 1.4.1717-foss-2021b-Java-11-R-4.2.0
Ruby 3.0.1-GCCcore-11.2.0
Rust 1.56.0-GCCcore-11.2.0
Rust 1.54.0-GCCcore-11.2.0
Salmon 1.9.0-GCC-11.2.0
SAMtools 1.15.1-GCC-11.2.0
ScaLAPACK 2.1.0-gompi-2021b-fb
scikit-bio 0.5.7-foss-2021b
scikit-learn 1.0.1-foss-2021b
scikit-plot 0.3.7-foss-2021b
SciPy-bundle 2021.10-foss-2021b
Seaborn 0.11.2-foss-2021b
SEPP 4.5.1-foss-2021b
sequenza 3.0.0-foss-2021b
sequenza-utils 3.0.0-foss-2021b
snappy 1.1.9-GCCcore-11.2.0
SOCI 4.0.3-GCC-11.2.0
SpaTalk 1.0-foss-2021b-R-4.2.0
spoa 4.0.7-GCC-11.2.0
SQLite 3.36-GCCcore-11.2.0
STAR-CCM+ 17.02.008
statsmodels 0.13.1-foss-2021b
SWIG 4.0.2-GCCcore-11.2.0
Szip 2.1.1-GCCcore-11.2.0
TALYS 1.96-GCCcore-11.2.0
tbb 2021.4.0-GCCcore-11.2.0
Tcl 8.6.11-GCCcore-11.2.0
TensorFlow 2.7.1-foss-2021b
Tk 8.6.11-GCCcore-11.2.0
Tkinter 3.9.6-GCCcore-11.2.0
TOBIAS 0.13.3-foss-2021b
tqdm 4.62.3-GCCcore-11.2.0
trimAl 1.4.1-GCCcore-11.2.0
tRNAscan-SE 2.0.9-GCCcore-11.2.0
typing-extensions 3.10.0.2-GCCcore-11.2.0
UCX 1.11.2-GCCcore-11.2.0
UCX-CUDA 1.11.2-GCCcore-11.2.0-CUDA-11.4.1
UDUNITS 2.2.28-GCCcore-11.2.0
UnZip 6.0-GCCcore-11.2.0
USEARCH 11.0.667-i86linux32
utf8proc 2.6.1-GCCcore-11.2.0
util-linux 2.37-GCCcore-11.2.0
wget 1.21.2-GCCcore-11.2.0
wittgenstein 0.3.2-foss-2021b
X11 20210802-GCCcore-11.2.0
x264 20210613-GCCcore-11.2.0
x265 3.5-GCCcore-11.2.0
xarray 0.20.1-foss-2021b
XlsxWriter 3.0.2-GCCcore-11.2.0
xorg-macros 1.19.3-GCCcore-11.2.0
Xvfb 1.20.13-GCCcore-11.2.0
XZ 5.2.5-GCCcore-11.2.0
Yasm 1.3.0-GCCcore-11.2.0
ZeroMQ 4.3.4-GCCcore-11.2.0
Zip 3.0-GCCcore-11.2.0
zlib 1.2.11-GCCcore-11.2.0
zlib 1.2.11
zstd 1.5.0-GCCcore-11.2.0