--- a
+++ b/docker/Dockerfile
@@ -0,0 +1,56 @@
+FROM centos:7
+
+ENV PATH=/apps/exseek/bin:/apps/ucsc_tools:/opt/microsoft/ropen/3.5.3/lib64/R/bin:/apps/anaconda3/bin:/apps/anaconda2/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
+
+COPY CentOS-Base.repo /etc/yum.repos.d
+RUN yum group install -y 'Development Tools' \
+    && yum install -y epel-release \
+    && yum install -y curl screen \
+         yum-utils \
+        coreutils which binutils vim nano openssl-devel Xorg-devel mesa-libGL-devel \
+        libxml-devel libxml2-devel \
+        java-1.8.0-openjdk wget pigz gawk \
+    && yum-builddep -y R \
+    && mkdir -p /apps/archive /apps/ucsc_tools
+
+
+# install anaconda3
+COPY Anaconda3-2019.03-Linux-x86_64.sh /apps/archive
+RUN bash /apps/archive/Anaconda3-2019.03-Linux-x86_64.sh -b -p /apps/anaconda3 
+
+# install pip packages
+RUN /apps/anaconda3/bin/pip install skrebate mlxtend tqdm jinja2 snakemake pyBigWig multiqc
+
+# UCSC kent tools
+RUN mkdir -p /apps/ucsc_tools \
+    && wget -q -P /apps/ucsc_tools/ 'http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bedToGenePred' \
+        'http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/genePredToGtf' \
+        'http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bedGraphToBigWig' \
+        'http://hgdownload.cse.ucsc.edu/admin/exe/linux.x86_64/bigWigToBedGraph' \
+    && chmod +x /apps/ucsc_tools/*
+
+# install R
+COPY microsoft-r-open-3.5.3.tar.gz /apps/archive
+RUN tar -C /apps/archive -zxf /apps/archive/microsoft-r-open-3.5.3.tar.gz \
+    && bash /apps/archive/microsoft-r-open/install.sh -s -a -u
+
+# install R packages
+COPY install-R-packages.R /apps/archive/
+RUN cd /apps/archive; Rscript /apps/archive/install-R-packages.R
+
+# install conda packages
+RUN /apps/anaconda3/bin/conda install -y 'python<3.7' numpy scipy scikit-learn 'openssl<1.1' \
+    && /apps/anaconda3/bin/conda install -y pandas matplotlib seaborn h5py \
+    && /apps/anaconda3/bin/conda install -c bioconda -y bedtools samtools star subread bowtie2 rsem bamtools cutadapt picard gffread gffcompare \
+    && /apps/anaconda3/bin/conda install -c bioconda -y fastx_toolkit biopython
+
+# cleanup 
+RUN /apps/anaconda3/bin/conda clean -y --all \
+    && yum clean all \
+    && rm -rf /apps/archive
+
+# Install exseek-pipeline
+COPY exseek_pipeline-1.0.0-py3-none-any.whl /apps
+RUN /apps/anaconda3/bin/pip install /apps/exseek_pipeline-1.0.0-py3-none-any.whl \
+    && rm -f /apps/exseek_pipeline-1.0.0-py3-none-any.whl
+