diff --git a/pkgs/applications/science/biology/mni_autoreg/default.nix b/pkgs/applications/science/biology/mni_autoreg/default.nix
new file mode 100644
index 000000000000..5e7808918e99
--- /dev/null
+++ b/pkgs/applications/science/biology/mni_autoreg/default.nix
@@ -0,0 +1,34 @@
+{ stdenv, fetchgit, cmake, makeWrapper, perl, GetoptTabular, MNI-Perllib, libminc }:
+
+stdenv.mkDerivation rec {
+  pname = "mni_autoreg";
+  name  = "${pname}-0.99.70";
+
+  src = fetchgit {
+    url = "https://github.com/BIC-MNI/${pname}.git";
+    rev = "a4367b82012fe3b40e794fc1eb6c3c86e86148bf";
+    sha256 = "1j5vk7hf03y38fwb5klfppk3g4d2hx1fg3ikph2708pnssmim2qr";
+  };
+
+  nativeBuildInputs = [ cmake makeWrapper ];
+  buildInputs = [ libminc ];
+  propagatedBuildInputs = [ perl GetoptTabular MNI-Perllib ];
+
+  cmakeFlags = [ "-DLIBMINC_DIR=${libminc}/lib/" "-DBUILD_TESTING=FALSE" ];
+  # testing broken: './minc_wrapper: Permission denied' from Testing/ellipse0.mnc
+
+  postFixup = ''
+    for prog in autocrop mritoself mritotal xfmtool; do
+      echo $out/bin/$prog
+      wrapProgram $out/bin/$prog --prefix PERL5LIB : $PERL5LIB;
+    done
+  '';
+
+  meta = with stdenv.lib; {
+    homepage = https://github.com/BIC-MNI/mni_autoreg;
+    description = "Tools for automated registration using the MINC image format";
+    maintainers = with maintainers; [ bcdarwin ];
+    platforms = platforms.unix;
+  };
+}
+
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index d16043ce2747..ba3d6192a216 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -19765,6 +19765,10 @@ with pkgs;
     inherit (perlPackages) TextFormat;
   };
 
+  mni_autoreg = callPackage ../applications/science/biology/mni_autoreg {
+    inherit (perlPackages) GetoptTabular MNI-Perllib;
+  };
+
   ncbi_tools = callPackage ../applications/science/biology/ncbi-tools { };
 
   paml = callPackage ../applications/science/biology/paml { };