diff --git a/gtf2bed/Haskell/LICENSE b/gtf2bed/Haskell/LICENSE
new file mode 100644
index 0000000000000000000000000000000000000000..65927ec5f09261ae291beb77d4a3138c483899f4
--- /dev/null
+++ b/gtf2bed/Haskell/LICENSE
@@ -0,0 +1,30 @@
+Copyright Blaise Li (c) 2016
+
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+    * Redistributions of source code must retain the above copyright
+      notice, this list of conditions and the following disclaimer.
+
+    * Redistributions in binary form must reproduce the above
+      copyright notice, this list of conditions and the following
+      disclaimer in the documentation and/or other materials provided
+      with the distribution.
+
+    * Neither the name of Blaise Li nor the names of other
+      contributors may be used to endorse or promote products derived
+      from this software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS
+"AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT
+LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR
+A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT
+OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
+LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE,
+DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY
+THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT
+(INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
\ No newline at end of file
diff --git a/gtf2bed/Haskell/README.md b/gtf2bed/Haskell/README.md
new file mode 100644
index 0000000000000000000000000000000000000000..c1357e68094802d069d57696b6fd8a2fc7b8c05b
--- /dev/null
+++ b/gtf2bed/Haskell/README.md
@@ -0,0 +1,16 @@
+Goal
+====
+
+This program converts text passed to its standard input to bed format, using
+the `gene_id` annotation to make the 4th column.
+
+Example usage
+=============
+
+    gft2bed < genes.gtf > genes.bed
+
+Compiling
+=========
+
+This program needs to be compiled and installed using the stack Haskell package
+manager. See the `install.sh` script.
diff --git a/gtf2bed/Haskell/Setup.hs b/gtf2bed/Haskell/Setup.hs
new file mode 100644
index 0000000000000000000000000000000000000000..9a994af677b0dfd41b4e3b76b3e7e604003d64e1
--- /dev/null
+++ b/gtf2bed/Haskell/Setup.hs
@@ -0,0 +1,2 @@
+import Distribution.Simple
+main = defaultMain
diff --git a/gtf2bed/Haskell/gtf2bed.cabal b/gtf2bed/Haskell/gtf2bed.cabal
new file mode 100644
index 0000000000000000000000000000000000000000..50a4b16ee3c1b48d3d89ce2a7c070ceb37438a08
--- /dev/null
+++ b/gtf2bed/Haskell/gtf2bed.cabal
@@ -0,0 +1,19 @@
+name:                gtf2bed
+version:             0.1.0.0
+synopsis:            Program that converts gtf into bed
+description:         Please see README.md
+homepage:            https://gitlab.pasteur.fr/bli/bioinfo_utils/blob/master/README.md
+license:             BSD3
+license-file:        LICENSE
+author:              Blaise Li
+maintainer:          blaise.li@normalesup.org
+copyright:           (CC-BY-SA) Blaise Li
+category:            Bioinformatics
+build-type:          Simple
+cabal-version:       >=1.10
+
+executable gtf2bed
+  hs-source-dirs:      src
+  main-is:             Main.hs
+  default-language:    Haskell2010
+  build-depends:       base >= 4.7 && < 5, bytestring
diff --git a/gtf2bed/Haskell/install.sh b/gtf2bed/Haskell/install.sh
new file mode 100755
index 0000000000000000000000000000000000000000..1eb18fd0c59c43869db07f28e72a639f9b556e0d
--- /dev/null
+++ b/gtf2bed/Haskell/install.sh
@@ -0,0 +1,78 @@
+#!/bin/bash -l
+
+# http://linuxcommand.org/wss0150.php
+PROGNAME=$(basename $0)
+
+function error_exit
+{
+#	----------------------------------------------------------------
+#	Function for exit due to fatal program error
+#		Accepts 1 argument:
+#			string containing descriptive error message
+#	----------------------------------------------------------------
+    echo "${PROGNAME}: ${1:-"Unknown Error"}" 1>&2
+    exit 1
+}
+
+function try_load_gmp_module
+{
+    (module --version 2> /dev/null && module load gmp) || :
+}
+
+if [ $(id -u) = 0 ]
+then
+    # We don't want things to be installed in root's home directory.
+    install="install --local-bin-path /usr/local/bin"
+else
+    install="install"
+fi
+
+config_file="${HOME}/.stack/config.yaml"
+
+stack --version 2> /dev/null \
+    || (echo "loading stack" && module load stack/1.4.0)
+
+if [ "${config_file}" ]
+then
+    stack exec -- ghc --version > /dev/null \
+        || (try_load_gmp_module \
+            && stack setup \
+            && INCLUDE_PATH=$(echo ${CMAKE_INCLUDE_PATH} | tr ":" ",") \
+            && LIBRARY_PATH=$(echo ${CMAKE_LIBRARY_PATH} | tr ":" ",") \
+            && include_config="extra-include-dirs: [${INCLUDE_PATH}]" \
+            && libdir_config="extra-lib-dirs: [${LIBRARY_PATH}]" \
+            && echo "" >> ${config_file} \
+            && echo ${include_config} >> ${config_file} \
+            && echo ${libdir_config} >> ${config_file}) \
+        || error_exit "stack setup failed"
+    make_stack_options () {
+        stack_options=""
+    }
+else
+    stack exec -- ghc --version > /dev/null \
+        || (try_load_gmp_module && stack setup) \
+        || error_exit "stack setup failed"
+    # https://unix.stackexchange.com/a/60690/55127
+    # Delay variable evaluation in order to adapt to loaded libraries
+    make_stack_options () {
+        INCLUDE_PATH=$(echo ${CMAKE_INCLUDE_PATH} | tr ":" ",") \
+        LIBRARY_PATH=$(echo ${CMAKE_LIBRARY_PATH} | tr ":" ",") \
+        stack_options="--extra-include-dirs=${INCLUDE_PATH} --extra-lib-dirs=${LIBRARY_PATH}"
+    }
+fi
+
+# cd ${HOME} to ignore local project stack config
+hlint --version 2> /dev/null \
+    || (try_load_gmp_module && (cd ${HOME} && make_stack_options && stack ${stack_options} ${install} hlint)) \
+    || error_exit "hlint install failed"
+scan --version 2> /dev/null \
+    || (try_load_gmp_module && (cd ${HOME} && make_stack_options && stack ${stack_options} ${install} scan)) \
+    || error_exit "scan install failed"
+doctest --version 2> /dev/null \
+    || (try_load_gmp_module && (cd ${HOME} && make_stack_options && stack ${stack_options} ${install} doctest)) \
+    || error_exit "doctest install failed"
+
+make_stack_options
+stack ${stack_options} build --exec "hlint src/Main.hs" --exec "scan -j False src/Main.hs" --exec "doctest src/Main.hs"
+
+stack ${install}
diff --git a/gtf2bed/ensembl_gtf2bed.hs b/gtf2bed/Haskell/src/Main.hs
similarity index 100%
rename from gtf2bed/ensembl_gtf2bed.hs
rename to gtf2bed/Haskell/src/Main.hs
diff --git a/gtf2bed/Haskell/stack.yaml b/gtf2bed/Haskell/stack.yaml
new file mode 100644
index 0000000000000000000000000000000000000000..4410f30a9012a8f6a32a97e08dff95dd889960b8
--- /dev/null
+++ b/gtf2bed/Haskell/stack.yaml
@@ -0,0 +1,71 @@
+# This file was automatically generated by 'stack init'
+#
+# Some commonly used options have been documented as comments in this file.
+# For advanced use and comprehensive documentation of the format, please see:
+# http://docs.haskellstack.org/en/stable/yaml_configuration/
+
+# Resolver to choose a 'specific' stackage snapshot or a compiler version.
+# A snapshot resolver dictates the compiler version and the set of packages
+# to be used for project dependencies. For example:
+#
+# resolver: lts-3.5
+# resolver: nightly-2015-09-21
+# resolver: ghc-7.10.2
+# resolver: ghcjs-0.1.0_ghc-7.10.2
+# resolver:
+#  name: custom-snapshot
+#  location: "./custom-snapshot.yaml"
+#resolver: lts-7.1
+resolver: lts-8.23
+
+# User packages to be built.
+# Various formats can be used as shown in the example below.
+#
+# packages:
+# - some-directory
+# - https://example.com/foo/bar/baz-0.0.2.tar.gz
+# - location:
+#    git: https://github.com/commercialhaskell/stack.git
+#    commit: e7b331f14bcffb8367cd58fbfc8b40ec7642100a
+# - location: https://github.com/commercialhaskell/stack/commit/e7b331f14bcffb8367cd58fbfc8b40ec7642100a
+#   extra-dep: true
+#  subdirs:
+#  - auto-update
+#  - wai
+#
+# A package marked 'extra-dep: true' will only be built if demanded by a
+# non-dependency (i.e. a user package), and its test suites and benchmarks
+# will not be run. This is useful for tweaking upstream packages.
+packages:
+- '.'
+# Dependency packages to be pulled from upstream that are not in the resolver
+# (e.g., acme-missiles-0.3)
+extra-deps: []
+
+# Override default flag values for local packages and extra-deps
+flags: {}
+
+# Extra package databases containing global packages
+extra-package-dbs: []
+
+# Control whether we use the GHC we find on the path
+# system-ghc: true
+#
+# Require a specific version of stack, using version ranges
+# require-stack-version: -any # Default
+# require-stack-version: ">=1.2"
+#
+# Override the architecture used by stack, especially useful on Windows
+# arch: i386
+# arch: x86_64
+#
+# Extra directories used by stack for building
+# extra-include-dirs: [/path/to/dir]
+# extra-lib-dirs: [/path/to/dir]
+#
+# Allow a newer minor version of GHC than the snapshot specifies
+# compiler-check: newer-minor
+ghc-options:
+    "*": -O -Wall
+rebuild-ghc-options:
+    true