unique reads:在参考组上只有一个匹配点 multi-mapping reads:在参考组上有多个匹配点 下面是tophat的一个结果案例: Reads: Input :26140314Mapped :25159791(96.2%of input) of these:1027691(4.1%) have multiple alignments (1832have >20)96.2% overall read mapping rate. the quantity of unique reads :25...
Several strategies have been previously used (drop duplicated genes, distribute uniformly the reads, or estimate expression), but all of them provide biased results. We provide here a tool, called mmquant, for computing gene expression, included duplicated genes. If a read maps at different ...
Estimates of Hsp90 protein production as determined by Ribo-seq are reproducible but not robust, with inferred expression levels that can change 10-fold depending on how multimapping reads are processed. The differential expression of Hsp90 chaperones under nonstressed and heat shock conditions ...
With paired-end data, only pairs where both reads have been aligned are used, so might as well use the samtools0xCfiltering flag as above to reduce the size of the BAM file Step 2b: Align reads with kallisto (this is an alternative to Step 2a) kallisto pseudo -i Homo_sapiens.GRCh37.70...
(TMM) method was used to normalize compositional differences between libraries. To calculate the library size, we sum up the reads that overlap consensus peaks in each sample (Reads in Peaks). Peaks with FDR < 1% and absolute log2 fold change > 1 were defined as differentially accessible...
a, Percentage of reads mapped to the mouse genome was reproducible between 13 independently collected batches of nuclear profiles, and a minimal threshold of 15% mapped reads was used to identify the highest quality nuclear profiles. Dashed line shows position of cut-off for low-quality samples....
reducing the peak--to--average power ratio of multicarrier modulation by selected mapping.pdf 2015-03-19上传 reducing the peak--to--average power ratio of multicarrier modulation by selected mapping 文档格式: .pdf 文档大小: 149.16K 文档页数: ...
For non-barcoded samples, we discarded the contaminating mouse reads from the RNA-seq data using the same procedure as above, except aligning with the STAR aligner against the GRCm38 transcriptome using a GTF from GENCODE. We estimated expression as TPM values using RSEM, and counts using HT...
In this configuration, a read pro- duced by a duplicated gene may be mapped equally well to each homologous gene, giving rise to multi-mapping reads. These reads are complex to use in the quantification step, and several methods have been used to circumvent this problem. For instance, the...
The methods and processes described in this disclosure can be partially or fully embodied as code and/or data stored in a computer-readable storage medium or device, so that when a computer system reads and executes the code and/or data, the computer system performs the associated methods and...