Installed Applications: 2021b and Ubuntu20.04-haswell

Applications available on the BEAR systems (BlueBEAR, BEAR Cloud VMs, and CaStLeS VMs). All 2021b or Ubuntu20.04-haswell applications. In any one job, or session, you should use applications from only one BEAR Apps Version.

Application Version
adjustText 0.7.3-foss-2021b
ant 1.10.11-Java-11
Arrow 6.0.0-foss-2021b
arrow-R 6.0.0.2-foss-2021b-R-4.2.0
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
Bazel 3.7.2-GCCcore-11.2.0
BEAR-Python-MSc-Bioinformatics 2021b-foss-2021b
BeautifulSoup 4.10.0-GCCcore-11.2.0
BEDOPS 2.4.41-foss-2021b
BEDTools 2.30.0-GCC-11.2.0
binutils 2.37-GCCcore-11.2.0
binutils 2.37
BIOMASS 2.1.8-foss-2021b-R-4.2.0
Biopython 1.79-foss-2021b
BioServices 1.10.1-foss-2021b
Bisbee 20210108-foss-2021b-R-4.2.0
Bison 3.8.2
Bison 3.7.6-GCCcore-11.2.0
BLAST+ 2.12.0-gompi-2021b
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
BWA 0.7.17-GCCcore-11.2.0
bzip2 1.0.8-GCCcore-11.2.0
cairo 1.16.0-GCCcore-11.2.0
CD-HIT 4.8.1-GCC-11.2.0
CellChat 1.6.0-foss-2021b-R-4.2.0
ChimeraX 1.5-linux-x86_64
CMake 3.22.1-GCCcore-11.2.0
CMake 3.21.1-GCCcore-11.2.0
cppy 1.1.0-GCCcore-11.2.0
cURL 7.78.0-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
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
ecc_finder 1.0.0_20221007_67d06f3-foss-2021b
Eigen 3.3.9-GCCcore-11.2.0
expat 2.4.1-GCCcore-11.2.0
FastME 2.1.6.4-GCC-11.2.0
fastp 0.23.2-GCC-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
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
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
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
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
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
Java 11
jbigkit 2.1-GCCcore-11.2.0
JsonCpp 1.9.4-GCCcore-11.2.0
kseq 20221202
LAME 3.100-GCCcore-11.2.0
lftp 4.9.2-GCCcore-11.2.0
libarchive 3.5.1-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
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
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
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
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
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
maftools 2.12.0-foss-2021b-R-4.2.0
Mako 1.1.4-GCCcore-11.2.0
matplotlib 3.4.3-foss-2021b
MCL 14.137-GCCcore-11.2.0
Mesa 21.1.7-GCCcore-11.2.0
Meson 0.58.2-GCCcore-11.2.0
minimap2 2.24-GCCcore-11.2.0
mlxtend 0.19.0-foss-2021b
MMseqs2 13-45111-gompi-2021b
MPFR 4.1.0-GCCcore-11.2.0
NanoFilt 2.8.0-foss-2021b
NASM 2.15.05-GCCcore-11.2.0
ncurses 6.2-GCCcore-11.2.0
ncurses 6.2
netCDF 4.8.1-gompi-2021b
nettle 3.7.3-GCCcore-11.2.0
networkx 2.6.3-foss-2021b
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
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
OpenSSL 1.1
OrthoFinder 2.5.4-foss-2021b
Pandoc 2.13
Pango 1.48.8-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
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
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
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
PyEnsembl 2.0.1-foss-2021b
pyhpo 3.1.2-foss-2021b
Pysam 0.18.0-GCC-11.2.0
Pysam 0.17.0-GCC-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
PyYAML 5.4.1-GCCcore-11.2.0
Qhull 2020.2-GCCcore-11.2.0
Qt5 5.15.2-GCCcore-11.2.0
R 4.2.0-foss-2021b
Racon 1.5.0-GCCcore-11.2.0
RapidJSON 1.1.0-GCCcore-11.2.0
R-bundle-Bioconductor 3.15-foss-2021b-R-4.2.0
RE2 2022-02-01-GCCcore-11.2.0
re2c 2.2-GCCcore-11.2.0
rjags 4-13-foss-2021b-R-4.2.0
Rust 1.54.0-GCCcore-11.2.0
SAMtools 1.15.1-GCC-11.2.0
ScaLAPACK 2.1.0-gompi-2021b-fb
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
seqtk 1.3-GCC-11.2.0
sequenza 3.0.0-foss-2021b
sequenza-utils 3.0.0-foss-2021b
snappy 1.1.9-GCCcore-11.2.0
snpEff 5.0e-GCCcore-11.2.0-Java-11
SPAdes 3.15.3-GCC-11.2.0
SplAdder 3.0.3-foss-2021b
SQLite 3.36-GCCcore-11.2.0
statsmodels 0.13.1-foss-2021b
SWIG 4.0.2-GCCcore-11.2.0
Szip 2.1.1-GCCcore-11.2.0
Tcl 8.6.11-GCCcore-11.2.0
TensorFlow 2.7.1-foss-2021b
TideHunter 1.5.4-GCC-11.2.0
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
Trimmomatic 0.39-Java-11
UDUNITS 2.2.28-GCCcore-11.2.0
Unicycler 0.5.0-gompi-2021b
UnZip 6.0-GCCcore-11.2.0
utf8proc 2.6.1-GCCcore-11.2.0
util-linux 2.37-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
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
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