Systemic inflammation and body composition changes are associated with a poor prognosis in many diseases, but their role in coronavirus disease 2019 is not fully understood. This study aimed to evaluate the impact of body composition assessed by computed tomography (CT), systemic inflammation assessed by neutrophil-to-lymphocyte ratio (NLR) and a composite score based on skeletal muscle density (SMD) and NLR on clinical outcomes of COVID-19, such as clinical complications, use of ventilatory support and survival. Medical records of patients hospitalized from May 1, 2020, to July 31, 2020, with a laboratory diagnosis of COVID-19 who underwent CT were retrospectively reviewed. The areas and densities of skeletal muscle tissue and adipose tissue were obtained by analyzing CT images assessed at the level of the first lumbar vertebra (L1); blood count was used to calculate the NLR. Prognostic values were estimated via univariate and multivariate logistic regression analyses and the Kaplan-Meier curve. The study was approved by our local Institutional Review Board (CAAE: 36276620.2.0000.5404). A total of 202 patients were included.The median age was 59 years, 45% of patients required ICU care and 45 (22.5%) patients died. Multivariate logistic analysis demonstrated that low SMD (OR: 2.94; 95% CI: 1.13-7.66, P=0.027), high NLR (OR: 3.96; 95% CI: 1.24-12.69, P=0.021), the association of low SMD and high NLR (OR: 25.58; 95%CI: 2.37-276.71, P=0.008) and high subcutaneous adipose tissue radiodensity (SATR) (OR: 2,70; IC 95%: 1,08-6,74, P=0,033) had an increased risk of dying. Patients who had high SATR and both low SMD and high NLR required more mechanical ventilation (P=0.007 and P<0.001, respectively) and were hospitalized for a longer period (both P< 0.001). We concluded that high SATR, low SMD, high NLR and the composite score (SMD and NLR) can predict poor prognosis in patients with COVID-19, and they may be used as a tool for early identification of patients at risk.