diff --git a/Makefile b/Makefile
new file mode 100644
index 0000000..de828b9
--- /dev/null
+++ b/Makefile
@@ -0,0 +1,27 @@
+# define the C compiler to use
+CC=gcc
+
+# define any compile-time flags
+CFLAGS=-Wall -g -std=c99
+CLIBS=-lz -lhts
+
+# define the C source files
+SRCS=main.c config.c htsutils.c
+
+# define the C object files
+OBJS=$(SRCS:.c=.o)
+
+# define the executable file
+MAIN=fastqSeqStats
+
+all:	$(MAIN)
+
+$(MAIN):	$(OBJS)
+$(CC) $(CFLAGS) $(CLIBS) -o $(MAIN) $(OBJS)
+
+.c.o:
+$(CC) $(CFLAGS) $(CLIBS) -c $< -o $@
+
+.PHONY: clean
+clean:
+rm -f *.o $(MAIN)
\ No newline at end of file