rMATS-turbo软件是一种通用的计算工具,用于使用短读长RNA-seq数据分析替代剪接。它可以处理包含数千至数万个样本的大规模RNA-seq数据集,以发现和量化对应于所有主要类型的替代剪接模式的替代剪接事件。当提供具有多个(三个或更多)重复的两组RNA-seq样本时,rMATS-turbo可以识别两组之间的差异替代剪接事件。这两组可以...
可以看到,rmats在计算isofrom的长度时,提供了两种方式,二者的区别就在于是否考虑跳过的exon的长度。 软件安装 rMATS turbo是rMATS的C/Cython版本。主要的差别在于速度和存储资源上,rMATS turbo相较于rMATS速度要快100倍,存储使用要小1000倍,因此我们安装rMATS turbo。 安装依赖:Python (either 2.7 or 3.6),BLAS,LAPAC...
rMATS_C Initial commit rMATS turbo v4.1.0 5年前 rMATS_P Generate a summary.txt similar to rMATS v3.2.5 (#10) 4年前 rMATS_R Allow any number of threads for pairadise 5年前 rMATS_pipeline Add error checks when matching .rmats files to expected BAMs (#31) 4年前 te...
In rMATS-turbo, each alternative splicing pattern has a corresponding set of output files. In the filename templates below,[AS_Event]is replaced by one of the five basic alternative splicing patterns: skipped exon (SE), alternative 5' splice sites (A5SS), alternative 3' splice sites (A3SS...
forked fromXinglab/rmats-turbo NotificationsYou must be signed in to change notification settings Fork0 Star0 Files master bamtools docs rMATS_C rMATS_P FDR.py inclusion_level.py joinFiles.py paste.py prepare_stat_inputs.py summary.py
rMATS-turbo: an efficient and flexible computational tool for alternative splicing analysis of large-scale RNA-seq datadoi:10.1038/s41596-023-00944-2Wang, YuanyuanXie, ZhijieKutschera, EricAdams, Jenea I.Kadash-Edmondson, Kathryn E.Xing, Yi...
rMATS(reproducible RNA-seq Analysis of Transcript Splicing)是一个用于RNA测序数据分析的工具,用于检测基因的剪接事件。rMATS Turbo 是 rMATS 的改进版本,专注于更高的性能和更快的速度,能够允许不同长度的reads进行分析。 rMATS可识别的可变剪切事件有5种: ...
Hi, I used rmats-turbo with threads more than 1 to my research, it came out to be crashed and threw out a Segmentation fault, but when i set the threads number to be 1, it ran smoothly, how did it happened, can you figure it out? Btw, it...
./build_rmats cd bamtools; mkdir build; cd build; cmake ..; make; cd ../lib; rm *.so; rm.so.; rm.dylib; mkdir: cannot create directory ‘build’: File exists -- Configuring done -- Generating done -- Build files have been written to: /home/jp/Documents/Softs/rmats-turbo-master...
12 changes: 9 additions & 3 deletions 12 rMATS_pipeline/rmatspipeline/rmatspipeline.pyx @@ -3362,9 +3362,15 @@ cdef read_mxe_event_set(str from_gtf_path, const int jld2, const int rl, sup_info.set_info(shared_col_values.g_sym, shared_col_values.chrom, shared_col_values.strand)...