new paper available: RNA structure analysis of human spliceosomes reveals a compact 3D arrangement of snRNAs at the catalytic core

ArticleThe EMBO Journal advance online publication 3 September 2013; doi:10.1038/emboj.2013.198 Published online: 3 September 2013RNA structure analysis of human spliceosomes reveals a compact 3D arrangement of snRNAs at the catalytic coreMaria Anokhina1, Sergey Bessonov1, Zhichao Miao2, Eric Westhof2, Klaus Hartmuth1 and Reinhard Lührmann1Department of Cellular Biochemistry, Max Planck Institute for Biophysical Chemistry, Göttingen, GermanyArchitecture et … Continue reading new paper available: RNA structure analysis of human spliceosomes reveals a compact 3D arrangement of snRNAs at the catalytic core

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Clustering distance matrix Python

def TMclstr(fp): import scipy.cluster.hierarchy as sch import scipy.spatial.distance as ssd #read represent id list replist=read_clstr_represent(fp) lenlist=len(replist) #read TMscore matrix vec=[] f=file('TM.txt') for i in range(0,lenlist): for j in range(i+1,lenlist): a = f.readline().strip().split() t=1-float(a[2]) vec.append(t) f.close() #Clustering linkage_matrix=sch.linkage(ssd.squareform(vec)) #print linkage_matrix ind=sch.fcluster(linkage_matrix,0.95) inx=range(0,lenlist) data=zip(ind,inx) data.sort() for i,j in data: print replist[j],i

Install Oracle Java Runtime (JRE) 7 in Ubuntu 12.04 (Precise Pangolin)

Install Oracle Java Runtime (JRE) 7 in Ubuntu 12.04 (Precise Pangolin) Ubuntu 12.04 (Precise Pangolin) is right around the corner and requests have been pouring in from our loyal readers. One of those requests is how to install Oracle Java Runtime Environment (JRE) 7 in Ubuntu 12.04. I have written about this topic on this … Continue reading Install Oracle Java Runtime (JRE) 7 in Ubuntu 12.04 (Precise Pangolin)