Installed Applications: 2021b and EL8-sapphirerapids

Applications available on the BEAR systems (BlueBEAR and BEAR Cloud VMs). All 2021b or EL8-sapphirerapids applications. In any one job, or session, you should use applications from only one BEAR Apps Version.

Application Version
adehabitatHR 0.4.21-foss-2021b-R-4.2.0
adjustText 0.7.3-foss-2021b
ads 1.5-9-foss-2021b-R-4.2.0
aicsimageio 4.9.4-foss-2021b
aiohttp 3.8.1-GCCcore-11.2.0
alsa-lib 1.2.7.2
Amber 22.0-foss-2021b-AmberTools-22.3-CUDA-11.4.1
Amber 22.0-foss-2021b-AmberTools-22.3
ant 1.10.11-Java-11
archspec 0.1.3-GCCcore-11.2.0
arpack-ng 3.8.0-foss-2021b
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
astropy 5.0.4-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
attrdict3 2.0.2-GCCcore-11.2.0
Autoconf 2.71-GCCcore-11.2.0
autograd 1.5-foss-2021b
Automake 1.16.4-GCCcore-11.2.0
Autotools 20210726-GCCcore-11.2.0
awscli 2.9.4-foss-2021b
BamTools 2.5.2-GCC-11.2.0
barrnap 0.9-gompi-2021b
BAT 2.9.2-foss-2021b-R-4.2.0
Bazel 4.2.2-GCCcore-11.2.0
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-MSc-foss-2021b-R-4.2.0
BEAR-R-bio 2021b-foss-2021b-R-4.2.0
BeautifulSoup 4.10.0-GCCcore-11.2.0
BEDOPS 2.4.41-foss-2021b
BEDTools 2.30.0-GCC-11.2.0
bertini 1.6-gompi-2021b
betapart 1.5.6-foss-2021b-R-4.2.0
binutils 2.37-GCCcore-11.2.0
binutils 2.37
BIOMASS 2.1.8-foss-2021b-R-4.2.0
biom-format 2.1.12-foss-2021b
BioPerl 1.7.8-GCCcore-11.2.0
Biopython 1.79-foss-2021b
Bio-SearchIO-hmmer 1.7.3-GCC-11.2.0
BioServices 1.10.1-foss-2021b
Bisbee 20210108-foss-2021b-R-4.2.0
Bismark 0.24.2-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
Blosc 1.21.1-GCCcore-11.2.0
bokeh 2.4.2-foss-2021b
Boost 1.79.0-GCC-11.2.0
Boost 1.77.0-GCC-11.2.0
boto3 1.20.13-GCCcore-11.2.0
Bowtie2 2.4.4-GCC-11.2.0
Brotli 1.0.9-GCCcore-11.2.0
BWA 0.7.17-GCCcore-11.2.0
bx-python 0.8.13-foss-2021b
bzip2 1.0.8-GCCcore-11.2.0
cairo 1.16.0-GCCcore-11.2.0
canopus_treemap 0.0.1-foss-2021b
c-ares 1.18.1-GCCcore-11.2.0
Cartopy 0.20.3-foss-2021b
CASTEP 22.11-foss-2021b
ccache 4.6.1-GCCcore-11.2.0
CD-HIT 4.8.1-GCC-11.2.0
CellChat 1.6.0-foss-2021b-R-4.2.0
celldex 1.6.0-foss-2021b-R-4.2.0
CGAL 4.14.3-gompi-2021b
ChimeraX 1.5-linux-x86_64
CIRI-long 1.1.0-foss-2021b
Clang 12.0.1-GCCcore-11.2.0
clusterProfiler 4.4.4-foss-2021b-R-4.2.0
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
ConcurrentQueue 1.0.3-GCCcore-11.2.0
corner 2.2.1-foss-2021b
CP2K 2023.1-foss-2021b-CUDA-11.4.1
CP2K 2023.1-foss-2021b
cppy 1.1.0-GCCcore-11.2.0
CRYSTAL 23-iomkl-2021b
cuCIM 23.2.0-foss-2021b-CUDA-11.4.1
CUDA 11.4.1
cuDNN 8.2.2.26-CUDA-11.4.1
CUnit 2.1-3-GCCcore-11.2.0
CuPy 11.4.0-foss-2021b-CUDA-11.4.1
cURL 7.78.0-GCCcore-11.2.0
cutadapt 4.1-GCCcore-11.2.0
cuTENSOR 1.6.1.5-CUDA-11.4.1
cyCombine 0.2.15-foss-2021b-R-4.2.0
czifile 2019.7.2-foss-2021b
dask 2022.1.0-foss-2021b
DB 18.1.40-GCCcore-11.2.0
DB_File 1.857-GCCcore-11.2.0
DBus 1.13.18-GCCcore-11.2.0
dbus-glib 0.112-GCCcore-11.2.0
DCC 0.5.0-foss-2021b
DeepCell 0.11.1-foss-2021b-CUDA-11.4.1
delft3d 69179-iimpi-2021b
DendroPy 4.5.2-GCCcore-11.2.0
DIAMOND 2.0.13-GCC-11.2.0
dill 0.3.4-GCCcore-11.2.0
dm-tree 0.1.6-GCCcore-11.2.0
dotNET-SDK 3.1.424-linux-x64
double-conversion 3.1.5-GCCcore-11.2.0
Doxygen 1.9.1-GCCcore-11.2.0
DRAM 1.3.6-foss-2021b
ecc_finder 1.0.0_20221007_67d06f3-foss-2021b
edlib 1.3.9-GCC-11.2.0
Eigen 3.4.0-GCCcore-11.2.0
Eigen 3.3.9-GCCcore-11.2.0
elfutils 0.185-GCCcore-11.2.0
ELPA 2021.05.001-foss-2021b
embarcadero 1.2.0.1003-foss-2021b-R-4.2.0
emcee 3.1.3-foss-2021b
EMD 0.6.2-foss-2021b
enchant-2 2.3.3-GCCcore-11.2.0
epiAneufinder 1.0.1-foss-2021b-R-4.2.0
exiv2 0.27.5-GCCcore-11.2.0
expat 2.4.1-GCCcore-11.2.0
faahKO 1.36.0-foss-2021b-R-4.2.0
FastME 2.1.6.4-GCC-11.2.0
fastp 0.23.2-GCC-11.2.0
FastPG 0.0.8-foss-2021b-R-4.2.0
FastTree 2.1.11-GCCcore-11.2.0
fauxcurrence 1.2.0-foss-2021b-R-4.2.0
FFmpeg 4.3.2-GCCcore-11.2.0
FFTW 3.3.10-gompi-2021b
Fiona 1.8.21-foss-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
flowVS 1.28.0-foss-2021b-R-4.2.0
fontconfig 2.13.94-GCCcore-11.2.0
foss 2021b
freeglut 3.2.1-GCCcore-11.2.0
freetype 2.11.0-GCCcore-11.2.0
FreeXL 1.0.6-GCCcore-11.2.0
FriBidi 1.0.10-GCCcore-11.2.0
fsm-lite 1.0-GCCcore-11.2.0
fuzzySim 4.9.2-foss-2021b-R-4.2.0
gc 8.2.0-GCCcore-11.2.0
GCC 11.2.0
GCCcore 11.2.0
GConf 3.2.6-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
Gdspy 1.6.12-foss-2021b
GenMap 1.3.0-GCCcore-11.2.0
Genrich 0.6.1-GCC-11.2.0
GeoMxNGSPipeline 2.3.3.10
GEOS 3.9.1-GCC-11.2.0
gettext 0.21-GCCcore-11.2.0
gettext 0.21
GffCompare 0.12.6-GCC-11.2.0
gffread 0.12.7-GCCcore-11.2.0
gflags 2.2.2-GCCcore-11.2.0
ggfortify 0.4.14-foss-2021b-R-4.2.0
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
glew 2.2.0-GCCcore-11.2.0-egl
GLib 2.69.1-GCCcore-11.2.0
glib-networking 2.72.1-GCCcore-11.2.0
GLPK 5.0-GCCcore-11.2.0
GMP 6.2.1-GCCcore-11.2.0
gnuplot 5.4.2-GCCcore-11.2.0
GnuTLS 3.7.3-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
Grace 5.1.25-foss-2021b
graphite2 1.3.14-GCCcore-11.2.0
Graphviz 2.50.0-GCCcore-11.2.0
graphviz 0.20.1-foss-2021b
GRASS 8.2.0-foss-2021b
groff 1.22.4-GCCcore-11.2.0
Groovy 4.0.3-Java-11
GSL 2.7-GCC-11.2.0
GST-plugins-base 1.18.5-GCC-11.2.0
GStreamer 1.18.5-GCC-11.2.0
GTK3 3.24.31-GCCcore-11.2.0
GTS 0.7.6-GCCcore-11.2.0
Guile 3.0.7-GCCcore-11.2.0
gzip 1.10-GCCcore-11.2.0
h5netcdf 1.1.0-foss-2021b
h5py 3.6.0-foss-2021b
HarfBuzz 2.8.2-GCCcore-11.2.0
Harminv 1.4.1-foss-2021b
HDBSCAN 0.8.29-foss-2021b
HDF 4.2.15-GCCcore-11.2.0
HDF5 1.12.1-iimpi-2021b
HDF5 1.12.1-gompi-2021b
help2man 1.48.3-GCCcore-11.2.0
hiredis 1.0.2-GCCcore-11.2.0
HMMER 3.3.2-gompi-2021b
HPL 2.3-iomkl-2021b
HPL 2.3-foss-2021b
HTSeq 0.11.3-foss-2021b
HTSlib 1.14-GCC-11.2.0
hunspell 1.7.1-GCCcore-11.2.0
hwloc 2.5.0-GCCcore-11.2.0
hypervolume 3.1.0-foss-2021b-R-4.2.0
hypothesis 6.14.6-GCCcore-11.2.0
icellnet 1.0-foss-2021b-R-4.2.0
ICU 69.1-GCCcore-11.2.0
igraph 0.9.5-foss-2021b
iimpi 2021b
IJulia 1.23.3-Julia-1.8.2
imageio 2.13.5-foss-2021b
ImageMagick 7.1.0-4-GCCcore-11.2.0
imkl 2021.4.0-iompi-2021b
impi 2021.4.0-intel-compilers-2021.4.0
inferCNV 1.12.0-foss-2021b-R-4.2.0
intel-compilers 2021.4.0
intermine 1.13.0-GCCcore-11.2.0
intltool 0.51.0-GCCcore-11.2.0
ioh 0.3.2.8.3-foss-2021b
iomkl 2021b
iompi 2021b
IPython 7.26.0-GCCcore-11.2.0
IQ-TREE 2.2.1-gompi-2021b
iRF 3.0.0-foss-2021b-R-4.2.0
IRkernel 1.3-foss-2021b-R-4.2.0
ISA-L 2.30.0-GCCcore-11.2.0
JAGS 4.3.0-foss-2021b
Jansson 2.13.1-GCC-11.2.0
JasPer 2.0.33-GCCcore-11.2.0
Java 11.0.2
Java 11
jax 0.3.13-foss-2021b-CUDA-11.4.1
jax 0.3.13-foss-2021b
jbigkit 2.1-GCCcore-11.2.0
Jellyfish 2.3.0-GCC-11.2.0
jemalloc 5.2.1-GCCcore-11.2.0
JsonCpp 1.9.4-GCCcore-11.2.0
Julia 1.8.2-linux-x86_64
JupyterLab 3.1.6-GCCcore-11.2.0
kim-api 2.3.0-GCCcore-11.2.0
Kraken2 2.1.2-gompi-2021b
kseq 20221202
LAME 3.100-GCCcore-11.2.0
LAMMPS 23Jun2022-foss-2021b-kokkos-CUDA-11.4.1
LAMMPS 23Jun2022-foss-2021b-kokkos
leidenalg 0.8.8-foss-2021b
lftp 4.9.2-GCCcore-11.2.0
libarchive 3.5.1-GCCcore-11.2.0
libcerf 1.17-GCCcore-11.2.0
libctl 4.5.1-GCCcore-11.2.0
libdeflate 1.8-GCCcore-11.2.0
libdrm 2.4.107-GCCcore-11.2.0
libepoxy 1.5.8-GCCcore-11.2.0
libev 4.33-GCC-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
libgcrypt 1.9.3-GCCcore-11.2.0
libgd 2.3.3-GCCcore-11.2.0
libGDSII 0.21-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
libgpg-error 1.42-GCCcore-11.2.0
libiconv 1.16-GCCcore-11.2.0
libidn 1.38-GCCcore-11.2.0
libidn2 2.3.2-GCCcore-11.2.0
Libint 2.6.0-GCC-11.2.0-lmax-6-cp2k
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
libpsl 0.21.1-GCCcore-11.2.0
libreadline 8.1-GCCcore-11.2.0
librttopo 1.1.0-GCC-11.2.0
libsndfile 1.0.31-GCCcore-11.2.0
libsodium 1.0.18-GCCcore-11.2.0
LibSoup 3.0.7-GCC-11.2.0
libspatialindex 1.9.3-GCCcore-11.2.0
libspatialite 5.0.1-GCC-11.2.0
libtasn1 4.18.0-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
libunistring 1.0-GCCcore-11.2.0
libunwind 1.5.0-GCCcore-11.2.0
liburing 2.3-GCCcore-11.2.0
libvorbis 1.3.7-GCCcore-11.2.0
libwebp 1.2.0-GCCcore-11.2.0
libwpe 1.13.3-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
libxsmm 1.17-GCC-11.2.0
libyaml 0.2.5-GCCcore-11.2.0
libzip 1.7.3-GCCcore-11.2.0
lightkurve 2.3.0-foss-2021b
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
Lua 5.4.3-GCCcore-11.2.0
lxml 4.6.3-GCCcore-11.2.0
lz4 1.9.3-GCCcore-11.2.0
LZO 2.10-GCCcore-11.2.0
M4 1.4.19-GCCcore-11.2.0
M4 1.4.19
MAFFT 7.490-gompi-2021b-with-extensions
MAFFT 7.490-GCC-11.2.0-with-extensions
maftools 2.12.0-foss-2021b-R-4.2.0
make 4.3-GCCcore-11.2.0
Mako 1.1.4-GCCcore-11.2.0
MAnorm2_utils 1.0.0-foss-2021b
MATLAB 2022a
matplotlib 3.4.3-foss-2021b
Maven 3.6.3
MCL 14.137-GCCcore-11.2.0
Meep 1.25.0-foss-2021b
Mesa 21.1.7-GCCcore-11.2.0
Meson 0.58.2-GCCcore-11.2.0
MetaboLabPy 0.8.4-foss-2021b
MetaPhlAn 3.0.14-foss-2021b
methylartist 1.2.6-foss-2021b
METIS 5.1.0-GCCcore-11.2.0
Micro-Manager 1.4.24-foss-2021b
Miniconda3 4.12.0
minimap2 2.24-GCCcore-11.2.0
minizip 1.1-GCCcore-11.2.0
mlxtend 0.19.0-foss-2021b
MMseqs2 13-45111-gompi-2021b
mne-connectivity 0.5.0-foss-2021b
MNE-Python 1.1.1-foss-2021b
modbam2bed 0.7.0-GCC-11.2.0
ModelTest-NG 0.1.7-gompi-2021b
MOFA2 1.8.0-foss-2021b-R-4.2.0
mofapy2 0.7.0-foss-2021b
mofapy2 0.6.7-foss-2021b
monocle 2.24.1-foss-2021b-R-4.2.0
motif 2.3.8-GCCcore-11.2.0
MPB 1.11.1-foss-2021b
MPFR 4.1.0-GCCcore-11.2.0
msPurity 1.22.0-foss-2021b-R-4.2.0
MSstats 4.4.1-foss-2021b-R-4.2.0
MUSCLE 5.1-GCCcore-11.2.0
mvlearn 0.5.0-foss-2021b
NanoFilt 2.8.0-foss-2021b
nanopolish 0.14.0-foss-2021b
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-iimpi-2021b
netCDF 4.8.1-gompi-2021b
netcdf4-python 1.5.7-foss-2021b
netCDF-Fortran 4.5.3-iimpi-2021b
netCDF-Fortran 4.5.3-gompi-2021b
nettle 3.7.3-GCCcore-11.2.0
networkx 2.6.3-foss-2021b
Nextflow 22.04.0
nghttp2 1.48.0-GCC-11.2.0
nghttp3 0.6.0-GCCcore-11.2.0
ngtcp2 0.7.0-GCC-11.2.0
NiBabel 3.2.2-foss-2021b
nichenetr 20220911-foss-2021b-R-4.2.0
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
numba 0.54.1-foss-2021b
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
OpenFOAM (OpenCFD Ltd) v2206-foss-2021b
OpenJPEG 2.4.0-GCCcore-11.2.0
OpenMPI 4.1.1-intel-compilers-2021.4.0
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
ORCA 5.0.3-gompi-2021b
OrthoFinder 2.5.4-foss-2021b
OSU-Micro-Benchmarks 5.8-iimpi-2021b
OSU-Micro-Benchmarks 5.7.1-iompi-2021b
OSU-Micro-Benchmarks 5.7.1-iimpi-2021b
OSU-Micro-Benchmarks 5.7.1-gompi-2021b
ottr 1.2.0-foss-2021b-R-4.2.0
p11-kit 0.24.1-GCCcore-11.2.0
panaroo 1.3.2-foss-2021b
pandaR 1.28.0-foss-2021b-R-4.2.0
Pandoc 2.13
Pango 1.48.8-GCCcore-11.2.0
parallel 20210722-GCCcore-11.2.0
ParaView 5.9.1-foss-2021b-mpi
pbjam 1.0.0-foss-2021b
pcgr 1.0.3
pcgrr 1.0.3
PCRE 8.45-GCCcore-11.2.0
PCRE2 10.37-GCCcore-11.2.0
Perl 5.34.0-GCCcore-11.2.0-minimal
Perl 5.34.0-GCCcore-11.2.0
PHATE 1.0.10-foss-2021b
phateR 1.0.7-foss-2021b-R-4.2.0
PhitestR 0.2.0-foss-2021b-R-4.2.0
PhyloPhlAn 3.0.2-foss-2021b
picante 1.8.2-foss-2021b-R-4.2.0
picard 2.25.1-Java-11
Pillow 8.3.2-GCCcore-11.2.0
pingouin 0.5.3-foss-2021b
pixman 0.40.0-GCCcore-11.2.0
pkgconf 1.8.0-GCCcore-11.2.0
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
PLUMED 2.8.0-foss-2021b
PLUMED 2.7.3-foss-2021b
PMIx 4.1.0-GCCcore-11.2.0
PnetCDF 1.12.3-gompi-2021b
PostgreSQL 13.4-GCCcore-11.2.0
PRANK 170427-GCC-11.2.0
prodigal 2.6.3-GCCcore-11.2.0
PROJ 8.1.0-GCCcore-11.2.0
prokka 1.14.5-gompi-2021b
protobuf 3.17.3-GCCcore-11.2.0
protobuf-python 3.17.3-GCCcore-11.2.0
psycopg2 2.9.5-GCCcore-11.2.0
pugixml 1.12.1-GCCcore-11.2.0
PyAutoGUI 0.9.53-GCCcore-11.2.0
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