Apologies if I have misread your post, but you didn't mention anywhere about the kind of process you are following on your project. You asked if anyone has a project management method or software for this. Well this worries me somewhat since even the best project management software tool is no substitute for project management best practices. What I mean about best practices is that you should conduct the activities that thousands of project managers have carried out on thousands of projects. These could be summarised as:
define the scope and objectives of the project
define the deliverables - what are the tangible outcomes of the project both at the end and at stages during the project
plan how you are going to accomplish these deliverables
communicate the plan to everyone on your team and make everyone fully aware of what work they need to do and what their responsibilities are
define how you are going to monitor progress - daily/weekly meeting/progress report etc
manage changes since your customer/client is almost certainly going to change their mind about what they want
manage risks which means drawing up a risk list and taking steps each week to avoid or minimise the impact of the risks.
You will only need a project management scheduling tool such as MS Project when you are doing the planning and monitoring.
The technical part of scheduling tasks using a tools is the easy part. The hardest part of project management are the things above. One more thing that I've not mentioned is about managing the different human personalities on the team. If that's not done properly then the project is doomed from the start.
I recently wrote an article about project management best practices which you might like to take a look at.
I hope this helps.
simon