Help finding the right IC

The bq78350-R1 gauge and bq76940 AFE chipset will be the best option to support these requirements. You should use a charger device to provide a regulated voltage and current to charge the cells.

Hi Daniel,
The information at www.ti.com/battery in the "battery basics" of the "support & training" tab may be helpful. It covers different topics on charging, monitoring, and gauging.
Board space can certainly be a concern. Extra circuits can sometimes be desired as back-up or redundant protection. Frequently a multi-cell charger IC indicates a cell count not because it actually monitors that number of cells, but that its voltage range supports the required voltage. For charging the complete pack will typically be charged, so the charger should provide the voltage for the series cell combination. For 12 cells with a 4.2V charge voltage that would be 50.4V. The charger would monitor its voltage, current, and perhaps temperature, but not necessarily individual cells.
A circuit which monitors the cells can observe individual cell voltages and take some action. That action may be to alert the system to stop charging or discharging the cells, or it may actually control switches to open the current path. That circuit may be partitioned between several ICs, perhaps a monitor device which measures voltages and a MCU or gauge for control. Another approach is an analog front end (AFE) with ADC in the MCU. The measurement system can be modular if the measurement function handles fewer cells than the battery (such as 2 6 cell modules), but there will typically be extra circuitry for communication between modules. The bq76940 will support 12 cells in a single package and includes current, temperature measurement and low side FET outputs. The bq76PL455A will also support 12 cells but does not include current measurement or FET signaling. If your battery includes protection and you must communicate with it while protected, high side switching or an isolated interface may be desired. TIDA-00792 or TIDA-00255 show example circuits of the bq76940 with a gauge, TIDA-00449 shows a MCU implementation of a lower cell count and may be useful for a reference. These are battery only designs where the charger would be a different subsystem.
Hope this is helpful.

Hi Daniel,

The bq76940 does not provide a method to disable its automatic protections.  The bq78350-R1 will allow it to be ignored as a secondary protecton but the DSG will still be driven low, the gauge will attempt to reset it.  If you were using your own MCU you could control a separate FET driver from the MCU.  The fast current response of the bq76940 on DSG signal will always be mixed with its UV reaction though.

Passive external balancing is shown in the EVM and TI designs, but the best explanation may be in secton 4 of bq769x0 Family Top 10 Design Considerations  

The bq76940 and bq78350-R1 are designed to provide the functions indicated with the needed support components, examples are shown in the various designs.  Be sure to consider all your requirements.  A fuse or fuses are typically used with batteries, in some cases on the board and sometimes controlled by a secondary protector.  A secondary protector design reference is available as TIDA-00108. 

Thank you very much for your help, now I know where to start. I will probably have many more questions, but open another topic for it.