{"id":1890,"date":"2019-01-03T16:51:40","date_gmt":"2019-01-03T16:51:40","guid":{"rendered":"http:\/\/ri.itservices.manchester.ac.uk\/csf3\/?page_id=1890"},"modified":"2025-06-06T18:06:35","modified_gmt":"2025-06-06T17:06:35","slug":"bioinf","status":"publish","type":"page","link":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/software\/applications\/bioinf\/","title":{"rendered":"Bio-informatics Helper Modulefile"},"content":{"rendered":"<p>As part of the DPSF merger in to the CSF3, many bio-informatics applications were copied from the DPSF to the CSF3. These are not documented individually. To access these applications, please run the following command on the login node, and also in your jobscripts, if you load modulefiles from within jobscripts:<\/p>\n<pre>\r\nmodule load apps\/bioinf                # Same as loading the apps\/dpsf modulefile\r\n<\/pre>\n<p>Listing the available module files using <code>module avail<\/code> or searching for modulefiles using <code>module search <em>name<\/em><\/code> will display more modulefile names. <\/p>\n<p>To use the required software you will need to load both the bioinf modulefile and the specific one for the software. For example to use module load apps\/bioinf<\/p>\n<pre>\r\nmodule load apps\/bioinf\r\nmodule load apps\/picard\/2.1.0\/bin\r\n<\/pre>\n<p>If you have moved from CSF2 and cannot find the application you require then please try loading this modulefile as it may be that what you require is available, but has a slightly different modulefile name on CSF3.<\/p>\n<p>The following list of applications is available as of 3-Jan-2019. We will not frequently update this list so please use <code>module search<\/code> as above to check whether what you need may have been installed recently.<\/p>\n<pre>\r\n---  \/opt\/gridware\/legacy-dpsf\/el7\/etc\/modules  ---\r\n  apps\/bamtools\/2.3.0\/gcc-4.8.5\r\n  apps\/bbmap\/36.32\/gcc-4.8.5\r\n  apps\/bcftools\/1.2\/gcc-4.8.5\r\n  apps\/bcftools\/1.3\/gcc-4.8.5\r\n  apps\/bcftools\/1.4\/gcc-4.8.5\r\n  apps\/bcl2fastq\/1.8.4\/gcc-4.8.5\r\n  apps\/bcl2fastq\/2.17\/gcc-4.8.5+boost-1.55.0\r\n  apps\/bedtools\/2.22.0\/gcc-4.8.5\r\n  apps\/bedtools\/2.25.0\/gcc-4.8.5\r\n  apps\/bedtools\/2.27.1\/gcc-4.8.5\r\n  apps\/bismark\/0.16.3\/noarch\r\n  apps\/bismark\/0.17.0\/noarch\r\n  apps\/bitseq\/0.7.5\/gcc-4.8.5\r\n  apps\/bowtie\/1.1.0\/gcc-4.8.5\r\n  apps\/bowtie2\/2.2.3\/gcc-4.8.5\r\n  apps\/bowtie2\/2.2.6\/gcc-4.8.5\r\n  apps\/bowtie2\/2.3.0\/gcc-4.8.5\r\n  apps\/breakdancer\/1.3.5.1\/gcc-4.8.5+samtools-0.1.18+boost-1.60.0\r\n  apps\/bwa\/0.7.12\/gcc-4.8.5\r\n  apps\/bwa\/0.7.15\/gcc-4.8.5\r\n  apps\/bwa\/0.7.7\/gcc-4.8.5+perl-5.20.2\r\n  apps\/chromhmm\/1.2\/noarch\r\n  apps\/cmake\/3.5.2\/gcc-4.8.5\r\n  apps\/cpanminus\/1.5017\/perl-5.20.2\r\n  apps\/cufflinks\/2.2.2.20150701\/gcc-4.8.5+boost-1.55.0+samtools-0.1.19+eigen-3.2.4\r\n  apps\/cutadapt\/1.14\/gcc-4.8.5+python-2.7.8+setuptools-15.1\r\n  apps\/cutadapt\/1.8\/gcc-4.8.5+python-2.7.8\r\n  apps\/cython\/0.23.4\/gcc-4.8.5+python-2.7.8\r\n  apps\/cython_python3\/0.23.4\/gcc-4.8.5+python3-3.3.3\r\n  apps\/cython_python34\/0.23.4\/gcc-4.8.5+python3-3.4.3\r\n  apps\/delly\/0.6.5\/gcc-4.8.5+htslib-1.3+bamtools-2.3.0+boost-1.60.0\r\n  apps\/diaumpire\/2.0.0\/noarch\r\n  apps\/diffreps\/20150410\/gcc-4.8.5+perl-5.20.2\r\n  apps\/ensemblvep\/84\/perl-5.20.2+htslib-1.3\r\n  apps\/fastlowess\/20130915\/gcc-4.8.5+atlas-3.11.36+numpy-1.9.2+cython-0.23.4+python-2.7.8\r\n  apps\/fastml\/3.1\/noarch\r\n  apps\/fastqc\/0.11.3\/noarch\r\n  apps\/fastqscreen\/0.4.1\/noarch\r\n  apps\/fastqscreen\/0.6.1\/gcc-4.8.5+perl-5.20.2\r\n  apps\/faststructure\/1.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0+cython-0.23.4+gsl-1.16+setuptools-15.1\r\n  apps\/fasttree\/2.1.3\/gcc-4.8.5\r\n  apps\/freebayes\/1.0.2\/gcc-4.8.5+bamtools-2.3.0+cmake-3.5.2\r\n  apps\/freebayes\/1.1.0\/gcc-4.8.5+cmake-3.5.2\r\n  apps\/gatk\/3.5.0\/noarch\r\n  apps\/gatk\/3.6.0\/noarch\r\n  apps\/gatk\/3.8.0\/noarch [CSF(Slurm): Add -jdk_inflater -jdk_deflater to your GATK command-line]\r\n  apps\/gatk\/4.0.4.0\/noarch\r\n  apps\/gatkqueue\/3.5.0\/noarch\r\n  apps\/gatkqueue\/3.6.0\/noarch\r\n  apps\/gemini\/0.18.3\/gcc-4.8.5+setuptools-15.1+python-2.7.8+numpy-1.9.2+numexpr-2.4.4+pysam-0.8.3+cython-0.23.4+pybedtools-0.7.4+scipy-0.17.0+pandas-0.17.0+bcolz-1.1.0+ipython-4.2.1\r\n  apps\/genomicsbcftbx\/0.99.12\/gcc-4.8.5+setuptools-15.1+python-2.7.8\r\n  apps\/ghc\/7.8.2\/bin\r\n  apps\/ginkgo\/20180103\/gcc-4.8.5+R-3.3.1+bioconductor-2.14\r\n  apps\/gnuplot\/5.0.2\/gcc-4.8.5\r\n  apps\/gubbins\/1.4.9\/python3-3.4.3+setuptools_python34-15.1+fasttree-2.1.3+fastml-3.1+raxml-8.1.16\r\n  apps\/hdf5_mpi\/1.8.9\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/hdf5_serial\/1.8.9\/gcc-4.8.5\r\n  apps\/hicpro\/2.10.0\/gcc-4.8.5+python-2.7.8+pip-8.1.2+numpy-1.9.2+scipy-0.17.0+pysam-0.8.3+R-3.1.1+bowtie2-2.3.0+samtools-1.4\r\n  apps\/htseq\/0.6.1p1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  apps\/htseq\/0.9.1\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/htslib\/1.3\/gcc-4.8.5\r\n  apps\/htslib\/1.3.2\/gcc-4.8.5\r\n  apps\/idr_python34\/2.0.2\/python3-3.4.3+numpy_python34-1.9.2+setuptools_python34-15.1+matplotlib_python34-1.4.3+scipy_python34-0.17.0\r\n  apps\/imb\/4.0\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/ipython\/4.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/kallisto\/0.43.0\/gcc-4.8.5+hdf5_serial-1.8.9\r\n  apps\/kent\/303.1\/gcc-4.8.5\r\n  apps\/khmer\/2.0\/gcc-4.8.5+python-2.7.8+screed-0.9\r\n  apps\/khmer_python3\/2.0\/gcc-4.8.5+python3-3.3.3+screed_python3-0.9\r\n  apps\/khmer_python34\/2.0\/gcc-4.8.5+python3-3.4.3+screed_python34-0.9\r\n  apps\/luciphor2\/20141023\/noarch\r\n  apps\/macs\/2.1.0\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.0.20150420\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.0.20150731\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/macs\/2.1.1.20160309\/gcc-4.8.5+numpy-1.9.2\r\n  apps\/mats\/3.2.2b\/noarch\r\n  apps\/mats\/4.0.1\/noarch\r\n  apps\/memesuite\/4.11.2\/gcc-4.8.5+perl-5.20.2+python-2.7.8\r\n  apps\/memesuite_mpi\/4.11.2\/gcc-4.8.5+perl-5.20.2+python-2.7.8+openmpi-1.8.5\r\n  apps\/memtester\/4.3.0\/gcc-4.8.5\r\n  apps\/minimap2\/2.2\/gcc-4.8.5+python-2.7.8+cython-0.23.4\r\n  apps\/misopy\/0.5.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0\r\n  apps\/mono\/4.0.4.1\/gcc-4.8.5\r\n  apps\/msproteomicstools\/0.3.3\/gcc-4.8.5+python-2.7.8+cython-0.23.4+numpy-1.9.2+biopython-1.63+scipy-0.17.0+pil-1.1.7+pyqwt_qt46-5.2.1+pyqt-4.9.6\r\n  apps\/msproteomicstools\/0.4.3\/gcc-4.8.5+python-2.7.8+cython-0.23.4+numpy-1.9.2+biopython-1.63+scipy-0.17.0+sip-4.16.3+pil-1.1.7+pyqt-4.11.2+pyqwt_qt48-5.2.1\r\n  apps\/multiqc\/1.0\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/multiqc\/1.1\/gcc-4.8.5+python-2.7.8+setuptools-15.1+numpy-1.9.2+matplotlib-1.4.3\r\n  apps\/ncbiblast\/2.2.30\/gcc-4.8.5\r\n  apps\/novobreak\/1.1\/noarch\r\n  apps\/openms\/2.0.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms\/2.0.1\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms\/2.2.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4\r\n  apps\/openms_python\/2.0.0\/gcc-4.8.5+boost-1.60.0+eigen-3.2.4+seqan-1.4.1+libsvm-3.21.0+qt-4.8.4+python-2.7.8+numpy-1.9.2+cython-0.23.4\r\n  apps\/pandaseq\/2.8.1\/gcc-4.8.5\r\n  apps\/parallel\/20151222\/gcc-4.8.5\r\n  apps\/patchelf\/0.9\/gcc-4.8.5\r\n  apps\/percolator\/3.2\/gcc-4.8.5+boost-1.60.0+xsd-4.0.0\r\n  apps\/perl\/5.20.2\/gcc-4.8.5\r\n  apps\/phantompeakqualtools\/1.1\/gcc-4.8.5+R-3.2.3+boost-1.60.0\r\n  apps\/picard\/2.1.0\/bin\r\n  apps\/pip\/8.1.2\/python-2.7.8\r\n  apps\/plink\/1.07\/gcc-4.8.5\r\n  apps\/plink\/1.90.150618\/gcc-4.8.5+atlas-3.11.36+patchelf-0.9\r\n  apps\/plinkseq\/0.10\/gcc-4.8.5\r\n  apps\/proteowizard\/3.0.9844\/gcc-4.8.5+boost-1.60.0\r\n  apps\/pycogent\/1.5.3\/gcc-4.8.5+numpy-1.9.2+python-2.7.8\r\n  apps\/pynast\/1.2.2\/python-2.7.8+pycogent-1.5.3\r\n  apps\/pyprophet\/0.18.3\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+pandas-0.17.0+numexpr-2.4.4+scipy-0.17.0+matplotlib-1.4.3+seaborn-0.7.0+scikitlearn-0.17.1+setuptools-15.1\r\n  apps\/pyprophet\/0.22.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+pandas-0.17.0+numexpr-2.4.4+scipy-0.17.0+matplotlib-1.4.3+seaborn-0.7.0+scikitlearn-0.17.1+setuptools-15.1\r\n  apps\/python\/2.7.8\/gcc-4.8.5\r\n  apps\/python3\/3.3.3\/gcc-4.8.5\r\n  apps\/python3\/3.4.3\/gcc-4.8.5\r\n  apps\/qiime\/1.9.1\/python-2.7.8+numpy-1.9.2+scipy-0.17.0+pycogent-1.5.3+pandas-0.17.0+biomformat-2.1.4+matplotlib-1.4.3+ghc-7.8.2+pynast-1.2.2\r\n  apps\/quast\/2.3\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3\r\n  apps\/quast\/4.6.3\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3\r\n  apps\/R\/3.1.1\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/R\/3.2.3\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/R\/3.3.1\/gcc-4.8.5+lapack-3.5.0+blas-3.6.0\r\n  apps\/raxml\/8.1.16\/gcc-4.8.5+openmpi-1.8.5\r\n  apps\/rcount\/20150128\/gcc-4.8.5\r\n  apps\/rdpclassifier\/2.2\/noarch\r\n  apps\/repeatmasker\/4.0.5\/gcc-4.8.5+trf-4.07b+rmblast-2.2.27\r\n  apps\/rmblast\/2.2.27\/gcc-4.8.5\r\n  apps\/rnachipintegrator\/1.0.1\/gcc-4.8.5+setuptools-15.1+python-2.7.8\r\n  apps\/rnaseqc\/1.1.8\/noarch\r\n  apps\/rsem\/1.2.19\/gcc-4.8.5\r\n  apps\/salmon\/0.8.2\/gcc-4.8.5+boost-1.60.0+tbb-4.4.20160128\r\n  apps\/samtools\/0.1.18\/gcc-4.8.5\r\n  apps\/samtools\/0.1.19\/gcc-4.8.5\r\n  apps\/samtools\/1.2\/gcc-4.8.5\r\n  apps\/samtools\/1.3.1\/gcc-4.8.5+htslib-1.3.2\r\n  apps\/samtools\/1.4\/gcc-4.8.5\r\n  apps\/screed\/0.9\/gcc-4.8.5+python-2.7.8\r\n  apps\/screed_python3\/0.9\/gcc-4.8.5+python3-3.3.3\r\n  apps\/screed_python34\/0.9\/gcc-4.8.5+python3-3.4.3\r\n  apps\/seqprep\/1.2\/gcc-4.8.5\r\n  apps\/seqtk\/1.0\/gcc-4.8.5\r\n  apps\/setuptools\/15.1\/python-2.7.8\r\n  apps\/setuptools\/24.0.1\/python-2.7.8\r\n  apps\/setuptools_python3\/15.1\/python3-3.3.3\r\n  apps\/setuptools_python34\/15.1\/python3-3.4.3\r\n  apps\/sip\/4.14.2\/gcc-4.8.5+python-2.7.8\r\n  apps\/sip\/4.16.3\/gcc-4.8.5+python-2.7.8\r\n  apps\/sra\/2.3.5-2\/gcc-4.8.5\r\n  apps\/star\/2.4.2a\/gcc-4.8.5\r\n  apps\/star\/2.5.1a\/gcc-4.8.5\r\n  apps\/star\/2.5.3a\/gcc-4.8.5\r\n  apps\/star_long\/2.4.2a\/gcc-4.8.5\r\n  apps\/star_long\/2.5.3a\/gcc-4.8.5\r\n  apps\/stringtie\/1.3.3b\/gcc-4.8.5\r\n  apps\/subread\/1.5.0-p3\/gcc-4.8.5\r\n  apps\/subread\/1.6.0\/gcc-4.8.5\r\n  apps\/swathprophet\/20150223\/noarch\r\n  apps\/tabix\/0.2.6\/gcc-4.8.5\r\n  apps\/tax2tree\/1.0\/python-2.7.8+pycogent-1.5.3\r\n  apps\/tophat\/2.1.0\/gcc-4.8.5+boost-1.60.0\r\n  apps\/tpp\/4.8.0\/gcc-4.8.5+gnuplot-5.0.2\r\n  apps\/trf\/4.07b\/bin\r\n  apps\/trimgalore\/0.4.2\/noarch\r\n  apps\/trimgalore\/0.4.4\/noarch\r\n  apps\/trimmomatic\/0.32\/noarch\r\n  apps\/trimmomatic\/0.35\/noarch\r\n  apps\/trimmomatic\/0.36\/noarch\r\n  apps\/vcftools\/0.1.14\/gcc-4.8.5+perl-5.20.2\r\n  apps\/vcftools\/0.1.9\/gcc-4.8.5\r\n  apps\/virtualenv\/13.1.2\/python-2.7.8\r\n  apps\/virtualenv_python3\/13.1.2\/python3-3.3.3\r\n  apps\/virtualenv_python34\/13.1.2\/python3-3.4.3\r\n  apps\/vt\/0.577\/gcc-4.8.5\r\n  apps\/xtandem\/20151215\/gcc-4.8.5\r\n  compilers\/gcc\/4.8.2\r\n  compilers\/gcc\/system *default*\r\n  libs\/atlas\/3.10.3\/gcc-4.8.5+openmp+haswell *default*\r\n  libs\/atlas\/3.10.3\/gcc-4.8.5+openmp+ivybridge\r\n  libs\/atlas\/3.11.36\/gcc-4.8.5\r\n  libs\/bcolz\/1.1.0\/gcc-4.8.5+setuptools-24.0.1+python-2.7.8+numpy-1.9.2\r\n  libs\/bioconductor\/2.14\/gcc-4.8.5+R-3.2.3\r\n  libs\/bioconductor\/3.3\/gcc-4.8.5+R-3.3.1\r\n  libs\/biomformat\/2.1.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+scipy-0.17.0\r\n  libs\/bioperl\/1.6.923\/gcc-4.8.5+samtools-0.1.19\r\n  libs\/biopython\/1.63\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/biopython_python3\/1.63\/gcc-4.8.5+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/blas\/3.6.0\/gcc-4.8.5\r\n  libs\/boost\/1.55.0\/gcc-4.8.5+openmpi-1.8.5+python-2.7.8\r\n  libs\/boost\/1.60.0\/gcc-4.8.5+openmpi-1.8.5+python-2.7.8\r\n  libs\/eigen\/3.2.4\/gcc-4.8.5\r\n  libs\/gcc\/4.8.2\r\n  libs\/gcc\/system\r\n  libs\/gsl\/1.16\/gcc-4.8.5\r\n  libs\/imagemagick\/6.9.4\/gcc-4.8.5\r\n  libs\/lapack\/3.5.0\/gcc-4.8.5\r\n  libs\/libsvm\/3.21.0\/gcc-4.8.5\r\n  libs\/matplotlib\/1.4.3\/gcc-4.8.5+python-2.7.8+numpy-1.9.2 *default*\r\n  libs\/matplotlib\/1.4.3\/ivy\r\n  libs\/matplotlib_python3\/1.4.3\/gcc-4.8.5+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/matplotlib_python34\/1.4.3\/gcc-4.8.5+python3-3.4.3+numpy_python34-1.9.2\r\n  libs\/netcdf\/4.3.0\/gcc-4.8.5+hdf5_serial-1.8.9\r\n  libs\/numexpr\/2.4.4\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/numpy\/1.9.2\/gcc-4.8.5+atlas-3.10.3+python-2.7.8\r\n  libs\/numpy\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python-2.7.8 *default*\r\n  libs\/numpy_python3\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python3-3.3.3\r\n  libs\/numpy_python34\/1.9.2\/gcc-4.8.5+atlas-3.11.36+python3-3.4.3\r\n  libs\/pandas\/0.17.0\/gcc-4.8.5+python-2.7.8+numpy-1.9.2\r\n  libs\/pil\/1.1.7\/gcc-4.8.5+python-2.7.8\r\n  libs\/pybedtools\/0.7.4\/gcc-4.8.5+python-2.7.8+pysam-0.8.3\r\n  libs\/pyqt\/4.11.2\/gcc-4.8.5+python-2.7.8+qt-4.8.4\r\n  libs\/pyqt\/4.9.6\/gcc-4.8.5+python-2.7.8+qt-4.6.4\r\n  libs\/pyqwt_qt46\/5.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+sip-4.14.2+pyqt-4.9.6+qt-4.6.4\r\n  libs\/pyqwt_qt48\/5.2.1\/gcc-4.8.5+python-2.7.8+numpy-1.9.2+sip-4.16.3+pyqt-4.11.2+qt-4.8.4\r\n  libs\/pysam\/0.8.3\/gcc-4.8.5+python-2.7.8\r\n  libs\/qt\/4.6.4\/gcc-4.8.5\r\n  libs\/qt\/4.8.4\/gcc-4.8.5\r\n  libs\/rpy2\/2.8.2\/gcc-4.8.5+setuptools-15.1+python-2.7.8+R-3.2.3\r\n  libs\/scikitlearn\/0.17.1\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3+numpy-1.9.2+scipy-0.17.0\r\n  libs\/scikit-learn\/0.17.1\/gcc-4.8.5+python-2.7.8+matplotlib-1.4.3+numpy-1.9.2+scipy-0.17.0\r\n  libs\/scikit-learn_python3\/0.17.1\/gcc-4.8.5+python3-3.3.3+matplotlib_python3-1.4.3+numpy_python3-1.9.2+scipy_python3-0.17.0\r\n  libs\/scikit-learn_python34\/0.17.1\/gcc-4.8.5+python3-3.4.3+matplotlib_python34-1.4.3+numpy_python34-1.9.2+scipy_python34-0.17.0\r\n  libs\/scipy\/0.17.0\/gcc-4.8.5+atlas-3.10.3+python-2.7.8+numpy-1.9.2\r\n  libs\/scipy\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python-2.7.8+numpy-1.9.2 *default*\r\n  libs\/scipy_python3\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python3-3.3.3+numpy_python3-1.9.2\r\n  libs\/scipy_python34\/0.17.0\/gcc-4.8.5+atlas-3.11.36+python3-3.4.3+numpy_python34-1.9.2\r\n  libs\/seaborn\/0.7.0\/gcc-4.8.5+python-2.7.8+scipy-0.17.0+matplotlib-1.4.3+pandas-0.17.0\r\n  libs\/seqan\/1.4.1\/noarch\r\n  libs\/tbb\/4.4.20160128\/gcc-4.8.5\r\n  libs\/xsd\/4.0.0\/bin\r\n<\/pre>\n","protected":false},"excerpt":{"rendered":"<p>As part of the DPSF merger in to the CSF3, many bio-informatics applications were copied from the DPSF to the CSF3. These are not documented individually. To access these applications, please run the following command on the login node, and also in your jobscripts, if you load modulefiles from within jobscripts: module load apps\/bioinf # Same as loading the apps\/dpsf modulefile Listing the available module files using module avail or searching for modulefiles using module.. <a href=\"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/software\/applications\/bioinf\/\">Read more &raquo;<\/a><\/p>\n","protected":false},"author":2,"featured_media":0,"parent":86,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-1890","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/comments?post=1890"}],"version-history":[{"count":8,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890\/revisions"}],"predecessor-version":[{"id":10315,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/1890\/revisions\/10315"}],"up":[{"embeddable":true,"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/pages\/86"}],"wp:attachment":[{"href":"https:\/\/ri.itservices.manchester.ac.uk\/csf3\/wp-json\/wp\/v2\/media?parent=1890"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}