bed files have unusual fragment size distributions

snystrom / cutNrun-pipeline

Analysis pipeline for CUT&RUN Data. Currently configured for use in the McKay Lab at UNC, but extensible elsewhere by changing configuration files.

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Closed snystrom closed 3 years ago

snystrom commented 4 years ago

The 'dupsRemoved.bed' files vs the '_allFrags.bed' files have different fragsize distributions. Why??

allFrags appears correct.

aBrC-100Wing-30m-HiCa-CnR-Pel_dm3_trim_q5_dupsRemoved_allFrags.bed

aBrC-100Wing-30m-HiCa-CnR-Pel_dm3_trim_q5_dupsRemoved.bed

snystrom commented 4 years ago

dupsRemoved.bed has "score" not width. plotted on x?