minor corrections

wurmlab · Dec 6, 2021 · 5aa541e · 5aa541e
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diff --git a/Private and shared alleles/Polymorphisms in invicta and richteri/README.md b/Private and shared alleles/Polymorphisms in invicta and richteri/README.md
@@ -148,6 +148,8 @@ wc -l results/snp_frequencies.csv
 grep -c supergene results/snp_frequencies.csv
 # 39210
 
+rm -rf results/by_scaff
+
 ```
 
 

diff --git a/Private and shared alleles/Polymorphisms in invicta and richteri/shared_private.rmd b/Private and shared alleles/Polymorphisms in invicta and richteri/shared_private.rmd
@@ -191,14 +191,6 @@ private_alleles <- function(freq_matrix, pop) {
 
 }
 
-private_to_invicta_bb  <- private_alleles(allele_frequencies_ma, pop="invicta_bb")
-private_to_richteri_bb <- private_alleles(allele_frequencies_ma, pop="richteri_bb")
-
-allele_frequencies_ma <- snp_freq[, c("daf_invicta_bb", "daf_invicta_lb", "daf_richteri_bb", "daf_richteri_lb")]
-allele_frequencies_ma <- as.matrix(allele_frequencies_ma)
-
-
-
 snp_freq$private_to_richteri <- snp_freq$daf_invicta_bb == 0 & snp_freq$daf_invicta_lb == 0 &
 (snp_freq$daf_richteri_bb > 0 | snp_freq$daf_richteri_lb > 0 )
-Original file line number
+Diff line change
@@ Expand Up / @@ -148,6 +148,8 @@ wc -l results/snp_frequencies.csv @@
     grep -c supergene results/snp_frequencies.csv
     # 39210
+    rm -rf results/by_scaff
     ```
@@ Expand Down @@