Dear @AyeshaJunaid
Thank you for your message.
Yes Sen2Cor knows how to handle internally the L1C inputs after PB04.00.
Sen2Cor L2A outputs will follow the same encoding with the radiometric offset of 1000.
For further downstream application using surface reflectance, you need to convert L2A digital numbers (L2A_DN) according to the formula given in the point 4) of Sen2Cor Frequently Asked Questions
4) Radiometric offset
Since Processing Baseline (PB) 04.00 (25/01/2022), a radiometric offset has been introduced in order to preserve/provide negative radiometric values.
For these products, please be sure to perform the correct conversion when moving from Digital Number (DN) to Surface Reflectance (SR):
L2A_SR = (L2A_DN + BOA_ADD_OFFSET) / QUANTIFICATION_VALUE
For PB 04.00, 05.00, 05.09, 05.10 & 05.11 the actual values are:
L2A_SR = (L2A_DN - 1000) / 10000
Please refer to the following links (section: Level-2A processing): Processing Baseline - Sentiwiki and Copernicus Dashboard - Processors Releases | ESA
Cheers,
@Sen2cor_dev_team