BP-SCZ PGC paper

- All of these sumstats come from this paper:
Genomic Dissection of Bipolar Disorder and Schizophrenia, Including 28 Subphenotypes

- The advantage of using this paper is that it is essentially the PGC schizophrenia GWAS so I can essentially use it as a check on the CLOZUK GWAS. Additionally it provides bipolar vs. controls, bp/sz vs. controls, and sz v. bp. These additional GWASs will give us the ability to further dissect the cell types underlying one and both disorders.

From readme:
BDSCZvsCONT.sumstats.gz: Bipolar disorder cases (n=20,129) combined with schizophrenia cases (n=33,426)
against controls (n=54,065):
BDvsCONT.sumstats.gz: Bipolar disorder cases (n=20,129) against an independent bipolar specific set of
controls (n=21,524):
SCZvsCONT.sumstats.gz: Schizophrenia cases (n=33,426) against an independent schizophrenia specific set of
controls (n=32,541)
SCZvsBD.sumstats.gz: A subset of schizophrenia cases (n=23,585) and bipolar disorder cases (n=15,270)
matched for ancestry and genotyping array platform.

These files all have the same format and headers
CHR: Chromosome
SNP: Variant
BP: Genomic position
A1: Effect allele (used for frequency and OR)
A2: Non-effect allele
FRQ_A: Frequency in cases (header includes number of cases)
FRQ_U: Frequency in controls (header includes number of controls)
INFO : Information score representing quality of imputation
OR: Odds ratio based on A1
SE: Standard error
P: P-value
Direction: Direction of effect of each included cohort
HetPVa: Heterogeneity test p-value across included cohorts

- I should just be able to use the "daner" setting for this

~/my-python-modules/ldsc/munge_sumstats.py --sumstats BDSCZvsCONT.sumstats.gz --out munged_BDSCZvsCONT --daner
~/my-python-modules/ldsc/munge_sumstats.py --sumstats BDvsCONT.sumstats.gz --out munged_BDvsCONT --daner
~/my-python-modules/ldsc/munge_sumstats.py --sumstats SCZvsCONT.sumstats.gz --out munged_SZvsCONT --daner
~/my-python-modules/ldsc/munge_sumstats.py --sumstats SCZvsBD.sumstats.gz --out munged_SZvsBD --daner

