mouse_AlleleDB

My note

construct diploid genome. make_diploid_genome_for_F1_mouse.bsh
process illumina reads. make_allelicbias-PersonalGenome_P.CAST_M.B6-LEP_ZYG_ATGCA_forAlleleDB.bsh
run alleleDB on processed reads. make_allelicbias-PersonalGenome_P.CAST_M.B6-LEP_ZYG_ATGCA_forAlleleDB.bsh

Name		Name	Last commit message	Last commit date
Latest commit History 193 Commits
GM12878		GM12878
Kurpios_heart/scripts		Kurpios_heart/scripts
hmm		hmm
proseqPE		proseqPE
PIPELINE_StrandSpecific_P.CAST_M.129S1.mk		PIPELINE_StrandSpecific_P.CAST_M.129S1.mk
PIPELINE_StrandSpecific_P.CAST_M.B6.mk		PIPELINE_StrandSpecific_P.CAST_M.B6.mk
README.md		README.md
alleledb_strandSpecific_9_specifyFASTQ_mouse_PairEndBowtie.sh		alleledb_strandSpecific_9_specifyFASTQ_mouse_PairEndBowtie.sh
alleledb_strandSpecific_9_specifyFASTQ_mouse_SingleEndBowtie.sh		alleledb_strandSpecific_9_specifyFASTQ_mouse_SingleEndBowtie.sh
bowtie_pair_end_attempt.sh		bowtie_pair_end_attempt.sh
make_allelicbias-PersonalGenome_P.CAST_M.129-SRR4041367forAlleleDB.bsh		make_allelicbias-PersonalGenome_P.CAST_M.129-SRR4041367forAlleleDB.bsh
make_allelicbias-PersonalGenome_P.CAST_M.B6-LEP_ZYG_ATGCA_forAlleleDB.bsh		make_allelicbias-PersonalGenome_P.CAST_M.B6-LEP_ZYG_ATGCA_forAlleleDB.bsh
make_allelicbias-PersonalGenome_P.CAST_M.B6-PACHY_TCGTA_forAlleleDB.bsh		make_allelicbias-PersonalGenome_P.CAST_M.B6-PACHY_TCGTA_forAlleleDB.bsh
make_diploid_genome_for_F1_mouse.bsh		make_diploid_genome_for_F1_mouse.bsh
mouse_HMM.bsh		mouse_HMM.bsh
mouse_HMM_Engreitz.bsh		mouse_HMM_Engreitz.bsh
mouse_after_HMM_forGenome_browser.bsh		mouse_after_HMM_forGenome_browser.bsh
proseqHT_forSRR4041365.bsh		proseqHT_forSRR4041365.bsh
proseqHT_forShortInsert_forSRR4041365.bsh		proseqHT_forShortInsert_forSRR4041365.bsh
vcf2diploid_Cast_B6.sh		vcf2diploid_Cast_B6.sh

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