关于index,也叫barcodes,因为一个lane可以同时测多个样品,为了避免混淆样品的read products,每种样品的DNA由一种index修饰,这样测序得到的reads都是具有index标记的,在测序结果中,依据之前标签与样品的对应关系,就可以获得对应样品的数据。而这里的index1和index2是为了区分paired-end测序得到的双端reads。 二、Cluster ...
We evaluated our tool on 30脳 simulated pair-end reads from Arabidopsis thaliana with 1% base error. COPE connected over 99% of reads with 98.8% accuracy, which is, respectively, 10 and 2% higher than the recently published tool FLASH. When COPE is applied to real reads for genome assembly...
因为insert size是打断前的长度,打断之后便是reads,这里计算average reads长度。 shotgun sequencing鸟枪法:直接从生物细胞基因组中获取目的基因的方式 single-read :单端测序(200-500bp) Paired-end :双末端测序(200-500bp)因为双末端测序,所以中间被测序列称为insert,insert打断了之后的片段就是reads。 Mate-pair:...
We evaluated our tool on 30× simulated pair-end reads from Arabidopsis thaliana with 1% base error. COPE connected over 99% of reads with 98.8% accuracy, which is, respectively, 10 and 2% higher than the recently published tool FLASH. When COPE is applied to real reads for genome assembly...
Contig:由reads通过对overlap区域拼接组装成的没有gap的序列段; Scaffold:通过pair ends信息确定出的contig排列,中间有gap; Kmer:长度为k的核苷酸序列,用于构建de brujin图。 什么是N50,N70,N90? 答:把组装出的contigs或scaffolds从大到小排列,当其累计长度刚刚超过全部组装序列总长度50%时,最后一个contig或scaffold...
基因数据处理53之cs-bwamem集群版运行paird-end(1千万条100bp的reads),art:art_illumina-ssHS20-iGRCH38BWAindex/GRCH38chr1L3556522.fna-p-l100-m200-s10-c10000000-og38L100c100000la.edu.bwaspark.B
The complete chloroplast (cp) genome was assembled by Illumina paired-end reads data. The circular cp genome is 151,074 bp in size, including a large single copy (LSC) region of 82,837 bp, a small single copy (SSC) region of... P Li,G Jia - 《Mitochondrial Dna Part B》 被引量:...
master 2Branches5Tags Code Repository files navigation README License pIRS (profile based Illumina pair-end Reads Simulator) Contents === 1. Introduction 2. Program framework 3. Usage 4. Examples 5. Output file format 6. Notes 1 Introduction === pIRS is a program for simulating paired-end...
RPKM(Reads Per Kilobase of transcript, per Million mapped reads)和FPKM(Fragments Per Kilobase of transcript, per Million mapped reads)都是转录组数据分析中用于标准化基因表达水平的度量单位。它们考虑了每个基因的长度和测序深度,以便在不同的样本之间进行比较。
In this paper we introduce a GPU-based reformulation of the distributed MEC algorithm for the error correction of pair-end short reads. Our proposal allows for a deep parallelization of two of the most computationally heavy steps of the original algorithm while using a GPU processing unit rather...