Effective Genome Size for Masked MM9 36 bp reads
Hi All,
I was wondering if anyone knows the effective genome size for the masked MM9 build using 36 bp reads with 1 mismatch? Do I need to determine this with software? If so how would I do it. I need this number to do a GC correction of my ChIP-Seq data.
Best,
Joe
• 1,218 views
•
link
written
by
landrjos •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
To perform gc content bias corrections between atac-seq technical replicates
written by hyunjeong •
-
FastQC for paired end data
written by Dk •
-
Power calculation for RIP-seq
written by mimA •
-
GC bias correction for Chip-SEQ
written by Farron16 •
-
Determine if the reads in a .fasta file of a bacteria contains plasmid
written by suzuBell •
-
MACS2 transcription start site analysis of .BAM files
written by carlee.bettler •
-
ChIP-seq enrichment over specific genes
written by science_lizard •
-
Tool: THOR a HMM based approach for differential peak calling with replicates
written by vanvanka •
-
Gc Content Correction In Apt-Copynumber-Workflow
written by Astoulpho •
-
Snp130-Masked Fasta Files And Alignment
written by Rok •
Hi All,
A common effective genome size used for the unmasked MM9 genome is 2,150,570,000. Would masking reduce this to 58% because 58% of the genome is non repetitive. Is it that simple?
Joe