QIAseq Stranded mRNA Select/Stranded Total RNA Lib Kit
Analysis workflow versions- v1.0 - RNA Analysis Portal 1.0
- v1.1 - RNA-seq Analysis Portal 1.1
- v1.2 - RNA-seq Analysis Portal 2.0, 2.5, 3.0, 3.0.1, 4.0, 4.1, 5.0
Analysis workflow parameters
Only applied options and parameter are listed. Version numbers such as "v1.0" refer to the analysis workflow version.
Trim Reads | |
Trim using quality scores | Yes |
- Quality limit | 0.05 |
Trim ambiguous nucleotides | Yes |
- Maximum number of ambiguities | 2 |
Automatic read-through adapter trimming | Yes |
Adapter trimming by Trim adapter list | v1.0: Not applied |
v1.1: Yes, TruSeq adapters | |
Trim homopolymers from 3' | PolyG |
RNA-Seq Analysis | |
Mismatch cost | 2 |
Insertion cost | 3 |
Deletion cost | 3 |
Length fraction | 0.8 |
Similarity fraction | 0.8 |
Auto-detect paired distances | Yes |
Maximum number of hits for a read | 10 |
Strand specific | Forward |
Library type | Bulk |
Ignore broken pairs | Yes |
Expression value | Total counts |
Create experiment analysis workflow parameters
Only applied options and parameter are listed.
Differential Expression for RNA-Seq | |
Technology | Whole transcriptome RNA-Seq |
Normalization method | TMM |
Filter on average expression for FDR correction | Yes |
Create Heat Map for RNA-Seq | |
Distance measure | Euclidean distance |
Linkage criteria | Complete linkage |