diff --git a/pkgs/applications/science/biology/flywheel-cli/default.nix b/pkgs/applications/science/biology/flywheel-cli/default.nix
new file mode 100644
index 000000000000..7db8b0066263
--- /dev/null
+++ b/pkgs/applications/science/biology/flywheel-cli/default.nix
@@ -0,0 +1,49 @@
+{ lib
+, stdenv
+, fetchurl
+, unzip
+}:
+
+let
+  inherit (stdenv.targetPlatform) system;
+  throwSystem = throw "Unsupported system: ${system}";
+
+  os = {
+    x86_64-darwin = "darwin";
+    x86_64-linux = "linux";
+  }.${system} or throwSystem;
+
+  sha256 = {
+    x86_64-darwin = "sha256-OIyEu3Hsobui9s5+T9nC10SxMw0MhgmTA4SN9Ridyzo=";
+    x86_64-linux = "sha256-SxBjRd95hoh2zwX6IDnkZnTWVduQafPHvnWw8qTuM78=";
+  }.${system} or throwSystem;
+in
+stdenv.mkDerivation rec {
+  pname = "flywheel-cli";
+  version = "16.2.0";
+
+  src = fetchurl {
+    url = "https://storage.googleapis.com/flywheel-dist/cli/${version}/fw-${os}_amd64-${version}.zip";
+    inherit sha256;
+  };
+
+  nativeBuildInputs = [ unzip ];
+
+  unpackPhase = ''
+    unzip ${src}
+  '';
+
+  installPhase = ''
+    runHook preInstall
+    install -Dt $out/bin ./${os}_amd64/fw
+    runHook postInstall
+  '';
+
+  meta = with lib; {
+    description = "Library and command line interface for interacting with a Flywheel site";
+    homepage = "https://gitlab.com/flywheel-io/public/python-cli";
+    license = licenses.mit;
+    maintainers = with maintainers; [ rbreslow ];
+    platforms = [ "x86_64-darwin" "x86_64-linux" ];
+  };
+}
diff --git a/pkgs/top-level/all-packages.nix b/pkgs/top-level/all-packages.nix
index a5ee3327e03c..969317d33f9a 100644
--- a/pkgs/top-level/all-packages.nix
+++ b/pkgs/top-level/all-packages.nix
@@ -32209,6 +32209,8 @@ with pkgs;
 
   febio-studio = libsForQt5.callPackage ../applications/science/biology/febio-studio { };
 
+  flywheel-cli = callPackage ../applications/science/biology/flywheel-cli { };
+
   hisat2 = callPackage ../applications/science/biology/hisat2 { };
 
   htslib = callPackage ../development/libraries/science/biology/htslib { };