Forum: Bioinformatics
09-28-2016, 08:57 PM
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Replies: 0
Views: 2,062
Low coverage after alignment
Hi,
I'm working with a illumina Miseq 2*300bp PE 8 sample library run on a single lane of a flowcell. Ref ~32Mbp in size. I aligned PE raw dataset for one sample against the reference sequence...
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Forum: Bioinformatics
09-20-2016, 09:29 PM
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Replies: 4
Views: 1,769
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Forum: Bioinformatics
09-20-2016, 02:14 AM
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Replies: 4
Views: 1,769
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Forum: Bioinformatics
09-19-2016, 09:37 PM
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Replies: 4
Views: 1,769
Selecting the best alignment BAM file
Hi,
I have a PE dataset 300bp inserts by illumina MiSeq. I aligned the raw data using BWA-mem. Mapping statistics generated using Samtools flagstat are below.
5541008 + 0 in total (QC-passed...
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Forum: Bioinformatics
09-09-2016, 07:30 PM
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Replies: 2
Views: 3,845
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Forum: Bioinformatics
09-08-2016, 11:01 PM
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Replies: 2
Views: 3,845
Quality trimming & filtering illumina reads
Hi,
I have a illumina MiSeq data set, 32GB size genome, 300bp reads. Quality of reads degrades towards the 3' end in both R1 & R2, more in R2. I want to align reads to its reference using BWA-mem...
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