The V(D)J analysis pipeline can generally support single-end reads, including cases where.

only one end contains V(D)J gene information. However, this depends on the V(D)J analysis software used and the specific experimental design.

For single-end reads, V(D)J analysis software typically performs additional preprocessing and filtering to improve the accuracy of V(D)J rearrangement and clonotype identification. MobiVision can process both single-end and paired-end FASTQ files, specifying which read contains the V(D)J gene information. It can also identify which barcodes the reads belong to and determine the heavy and light chains of the V(D)J genes for effective V(D)J analysis.

It's important to note that for single-end reads containing only V(D)J gene information, the absence of other sequence information, such as UMI, might affect the accuracy and reliability of single-cell V(D)J analysis. Therefore, it's advisable to choose an appropriate sequencing strategy to ensure sufficient sequence information is available for V(D)J analysis.