Sequencing

Specifications

• Sample Index Sets for Single Cell 3'
• Sequencing Requirements for Single Cell 3'
• Sequencing Requirements for Single Cell 3' LT
• Sequencing Requirements for Single Cell 3' HT

User Guide

• Flowcell Capacity Calculator

Technical Note (16 documents)

• Interpreting Single Cell Gene Expression Data With and Without Intronic Reads
• Interpreting Cell Ranger Multi Web Summary Files for Single Cell 3’ Gene Expression with Feature Barcode technology for Cell Multiplexing
• Instructions to Download and Process FASTQs of Chromium X Demonstration Data
• Instructions to Download and Process FASTQs of 1.3M Brain Cells
• Instructions to Download and Process BAM files of 1.3 Million Brain Cells
• Chromium Single Cell 3’ v2 Libraries – Sequencing Performance on Illumina® NextSeq® 500 Flow Cells

v3 Chemistry

• Chromium Single Cell 3’ v3 Libraries – Sequencing Metrics for Illumina® Sequencers (pending)

v3.1 Next GEM Chemistry

• Sequencing Metrics & Base Composition of Single Cell 3' v3.1 Dual Index Libraries

v2 Chemistry

• Chromium Single Cell 3’ v2 Libraries – Sequencing Metrics for Illumina® Sequencers
• Chromium Single Cell 3’ v2 Libraries – Sequencing Metrics for Illumina® NovaSeq®
• Chromium Single Cell 3’ v2 Libraries – Sequencing Performance on Illumina® NextSeq® 500 Flow Cells
• Base Composition of Sequencing Reads of Chromium Single Cell 3’ v2 Libraries

Gene Expression

• Interpreting Cell Ranger Web Summary Files for Single Cell Gene Expression Assays
• Resolving Cell Types as a Function of Read Depth and Cell Number
• Interpreting Intronic and Antisense Reads in 10x Genomics Single Cell Gene Expression Data
• Biological & Technical Variation in Single Cell Gene Expression Experiments