isFirstFragment: Does a SAM flag indicate the first fragment
In HTSeqGenie: A NGS analysis pipeline.
Description
Usage
Arguments
Value
Description
Compute whether a SAM/BAM flag indicates a
first fragment. Method is not foolproof, as it ignores
a lot of SAM semantics. E.g the SAM spec says:
"If 0x1 is unset, no assumptions can be made about
0x2, 0x8, 0x20, 0x40 and 0x80".
For our purpose this should be enough, but we should
keep an open eye for a more robust implementation in Rsamtools.
Usage
1
isFirstFragment(flag)
Arguments
flag
A flag from the BAM/SAM file
Value
Logical
HTSeqGenie documentation built on Nov. 8, 2020, 6:12 p.m.
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Description Usage Arguments Value
Description
Compute whether a SAM/BAM flag indicates a first fragment. Method is not foolproof, as it ignores a lot of SAM semantics. E.g the SAM spec says: "If 0x1 is unset, no assumptions can be made about 0x2, 0x8, 0x20, 0x40 and 0x80". For our purpose this should be enough, but we should keep an open eye for a more robust implementation in Rsamtools.
Usage
1 | isFirstFragment(flag)
|
Arguments
flag |
A flag from the BAM/SAM file |
Value
Logical
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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