User: sanoriagarima

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Posts by sanoriagarima

<prev • 5 results • page 1 of 1 • next >
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Prediction of TSS from tuxedo pipeline
... I have 22Million (150*2) human transcriptome reads. I have performed reference alignment using tuxedo pipeline (Tophat followed by Cufflinks).I need to calculate transcription start site (TSS) in my aligned transcripts and how to calculate position of TSS with respect to proximal and distant promote ...
tuxedo rna-seq tss written 4 weeks ago by sanoriagarima0 • updated 4 weeks ago by jnoble33310
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Comment: C: Reason for multiple mapping of reads ?
... I checked for pseudo genes(homologous) but did not find them , could there be any other possible reason for it ? ...
written 7 weeks ago by sanoriagarima0
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Reason for multiple mapping of reads ?
... I have 75x2 (20.77) million reads for Acinetobacter_baumannii sample . I aligned the reads to the reference genome (Acinetobacter_baumannii downloaded from NCBI which has chromosome and two plasmid sequences) with end to end option(bowtie2 program) and got 86.58% reads which aligned concordantly &g ...
rna-seq written 8 weeks ago by sanoriagarima0
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Comment: C: Running cufflinks - gtf file not recognised
... can u post the screenshot of the command and error? ...
written 11 months ago by sanoriagarima0
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Unexplained reads from a genome
... Dear friends, I have six sample ( ~ >36M reads/sample) for ribosomal-profiling. In all the sample, >95% of the reads has adapter sequences as expected. Tophat(default parameters) was used to align the reads against human genome(hg38). For one of the sample had 81.50% alignment and rest had a ...
genome next-gen tophat alignment rna-seq written 11 months ago by sanoriagarima0 • updated 11 months ago by Biostar ♦♦ 20

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