User: hcraigwriter

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Posts by hcraigwriter

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Comment: A: Where Can I Download Some Bam Files?
... How about finding BAM files representing viral genomes, such as HIV? None of these sites mentioned has high coverage represented. Any ideas? Thank you ...
written 5.5 years ago by hcraigwriter0
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I Am Having Trouble Locating High Coverage Amplicon Assembly Data In Bam
... Can anyone point me to a place to download such files? I am looking for BAM files representing high coverage as in ultra deep sequencing, and preferably representing viral genome targets. I am considering using qualimap to assess mapping quality output graphics on high coverage (their test data only ...
assembly bam written 5.5 years ago by hcraigwriter0
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Comment: C: Nucleotide Substitution Matrix With Iupac Nucleotide Ambiguity Codes
... Is it possible to change the penalties to reflect matches among the IUPACs? If so how? It penalizes B (C,G,T) , D(A,G,T), H(A,C,T), V(A,C,G) negatively (negative score with all other NTs and ambiguous codes & self) and will be represented as mismatch in the alignment with their respective NTs & ...
written 5.7 years ago by hcraigwriter0

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