Question: Peak calling using spp package
0
gravatar for chaudharyc61
11 months ago by
chaudharyc6120
India
chaudharyc6120 wrote:

Hello everyone I'm using spp package for Chip-seq data so while reading the bam files, the data is showing three elements 1. tags, 2. flen and 3. quality What is flen ?

ADD COMMENTlink modified 11 months ago by Devon Ryan95k • written 11 months ago by chaudharyc6120
1
gravatar for Devon Ryan
11 months ago by
Devon Ryan95k
Freiburg, Germany
Devon Ryan95k wrote:

Fragment length, which is also known as template length.

ADD COMMENTlink written 11 months ago by Devon Ryan95k

While calling peak it is creating problem I am using spp package for peak calling and it is not giving binding characterstics

ADD REPLYlink written 11 months ago by chaudharyc6120

SPP is relatively obscure, with few people outside of ENCODE ever using it. Try a more common peak caller like MACS2 or SICER.

ADD REPLYlink written 11 months ago by Devon Ryan95k
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