User: zhuozhu132

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zhuozhu13230
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New User
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United States
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1 month ago
Joined:
2 years, 11 months ago
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z*********@gmail.com

Posts by zhuozhu132

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Comment: C: No reference bias?!
... Thank you very much for the reply, Karl! Actually the heterozygous sites I used were identified by genome sequencing. It's really strange to me.   ...
written 2.7 years ago by zhuozhu13230
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No reference bias?!
... Hey Biostars! So it's accepted that reads with reference allele have better chances to align to the reference genome, and this bias will cause artifacts in estimating allelic expression. Surprisingly in my data I found no reference bias, at all. The average reference ratio (=ref counts/total counts ...
rna-seq snp written 2.7 years ago by zhuozhu13230 • updated 2.7 years ago by karl.stamm3.2k
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DNA-seq PE150 BWA alignment
... Hi there! We sequenced some chicken genomic DNA (Illumina TruSeq, PE150), and I am trying to map the reads to reference genome with BWA mem and then call SNPs with GATK. I used the default settings of BWA, and checked the alignment statistics by using samtools flagstat. I got a 99% mapping rate. Doe ...
alignment sequencing written 2.9 years ago by zhuozhu13230

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Popular Question 12 weeks ago, created a question with more than 1,000 views. For DNA-seq PE150 BWA alignment

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