Multiple beads per droplet resolution

A method for producing a library for sequencing, the method comprising:

• encapsulating a single cell and multiple solid supports within a partition, wherein each solid support is linked to (i) first oligos that include a barcode unique to the solid support, a sequencing adaptor, and a 3′ capture sequence, and (ii) second oligos that include the barcode unique to the solid support, a sequencing adaptor, and a 3′ palindrome sequence common to the second oligos;
• lysing the cell in the partition;
• releasing the first oligos and the second oligos from the solid support;
• hybridizing the first oligos to RNA from the single cells;
• hybridizing the 3′ palindrome sequences of the second oligos to each other and extending the hybridized second oligos to form DNA dimers;
• releasing the contents of the partitions;
• extending the hybridized first oligos with an R2 retrotransposon to synthesize cDNA in the presence of an acceptor template to add a 3′ adaptor sequence;
• amplifying the DNA dimers and the cDNA to yield a library comprising adaptor sequences;
• and
• sequencing the library to produce sequence reads, wherein barcodes in a sequence read indicate solid supports that were present in the partition.