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Consolidated Statements of Cash Flows (unaudited) (USD $)
 6 Months Ended
Mar. 31, 2015
Mar. 31, 2014
CASH FLOWS FROM OPERATING ACTIVITIES:    
Net loss $ (51,261,694)us-gaap_ProfitLoss $ (24,668,431)us-gaap_ProfitLoss
Net loss attributable to noncontrolling interests   97,600us-gaap_NetIncomeLossAttributableToNoncontrollingInterest
NET LOSS ATTRIBUTABLE TO ARROWHEAD (51,261,694)us-gaap_NetIncomeLoss (24,570,831)us-gaap_NetIncomeLoss
(Gain) loss on disposal of fixed assets (19,195)us-gaap_GainLossOnSaleOfPropertyPlantEquipment 58,878us-gaap_GainLossOnSaleOfPropertyPlantEquipment
Change in value of derivatives (2,551,116)us-gaap_UnrealizedGainLossOnDerivatives 6,470,803us-gaap_UnrealizedGainLossOnDerivatives
Acquired in-process research and development 10,142,786arwr_AcquiredInProcessResearchAndDevelopment  
Stock-based compensation 4,219,935us-gaap_ShareBasedCompensation 1,719,582us-gaap_ShareBasedCompensation
Depreciation and amortization 739,598us-gaap_DepreciationAndAmortization 799,184us-gaap_DepreciationAndAmortization
Amortization of note premiums 668,364us-gaap_AmortizationOfDebtDiscountPremium 269,313us-gaap_AmortizationOfDebtDiscountPremium
Non-controlling interest   (97,600)us-gaap_NetIncomeLossAttributableToNoncontrollingInterest
Changes in operating assets and liabilities:    
Receivables   75,000us-gaap_IncreaseDecreaseInReceivables
Other receivables (279,500)us-gaap_IncreaseDecreaseInOtherReceivables (611,360)us-gaap_IncreaseDecreaseInOtherReceivables
Other current assets (3,223,118)us-gaap_IncreaseDecreaseInOtherCurrentAssets (206,011)us-gaap_IncreaseDecreaseInOtherCurrentAssets
Accounts payable 2,402,381us-gaap_IncreaseDecreaseInAccountsPayable 1,311,947us-gaap_IncreaseDecreaseInAccountsPayable
Accrued expenses (1,442,450)us-gaap_IncreaseDecreaseInAccruedLiabilities 275,370us-gaap_IncreaseDecreaseInAccruedLiabilities
Other 34,425us-gaap_IncreaseDecreaseInOtherOperatingLiabilities (214,329)us-gaap_IncreaseDecreaseInOtherOperatingLiabilities
NET CASH USED IN OPERATING ACTIVITIES (40,569,584)us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations (14,720,054)us-gaap_NetCashProvidedByUsedInOperatingActivitiesContinuingOperations
CASH FLOWS FROM INVESTING ACTIVITIES:    
Cash paid for acquisitions (7,000,000)us-gaap_PaymentsToAcquireAssetsInvestingActivities  
Purchases of property and equipment (852,063)us-gaap_PaymentsToAcquirePropertyPlantAndEquipment (607,772)us-gaap_PaymentsToAcquirePropertyPlantAndEquipment
Proceeds from sale of fixed assets 500us-gaap_ProceedsFromSaleOfPropertyPlantAndEquipment  
Purchase of marketable securities   (46,365,528)us-gaap_PaymentsToAcquireMarketableSecurities
Proceeds from sale of marketable securities 12,150,774us-gaap_ProceedsFromSaleAndMaturityOfMarketableSecurities 5,010,238us-gaap_ProceedsFromSaleAndMaturityOfMarketableSecurities
NET CASH USED IN INVESTING ACTIVITIES 4,299,211us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations (41,963,062)us-gaap_NetCashProvidedByUsedInInvestingActivitiesContinuingOperations
CASH FLOWS FROM FINANCING ACTIVITIES:    
Principal payments on capital leases and notes payable (106,554)us-gaap_RepaymentsOfLongTermCapitalLeaseObligations (204,448)us-gaap_RepaymentsOfLongTermCapitalLeaseObligations
Proceeds from issuance of common stock and preferred stock, net   172,641,671us-gaap_ProceedsFromIssuanceOrSaleOfEquity
Proceeds from the exercise of warrants and stock options 313,618arwr_ProceedsFromExerciseOfWarrantsAndStockOptions 7,979,309arwr_ProceedsFromExerciseOfWarrantsAndStockOptions
NET CASH PROVIDED BY FINANCING ACTIVITIES 207,064us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations 180,416,532us-gaap_NetCashProvidedByUsedInFinancingActivitiesContinuingOperations
NET INCREASE (DECREASE) IN CASH (36,063,309)us-gaap_CashAndCashEquivalentsPeriodIncreaseDecrease 123,733,416us-gaap_CashAndCashEquivalentsPeriodIncreaseDecrease
CASH AT BEGINNING OF PERIOD 132,510,610us-gaap_CashAndCashEquivalentsAtCarryingValue 19,114,444us-gaap_CashAndCashEquivalentsAtCarryingValue
CASH AT END OF PERIOD 96,447,301us-gaap_CashAndCashEquivalentsAtCarryingValue 142,847,860us-gaap_CashAndCashEquivalentsAtCarryingValue
Supplementary disclosures:    
Interest paid 7,655us-gaap_InterestPaid 17,105us-gaap_InterestPaid
Common stock issued to Novartis for asset acquisition $ 25,000,000arwr_CommonStockIssuedForAssetAcquisition