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Good mean coverage but big std in coverage

bamqc rnaseq qualimap coverage written 9 days ago by Pin.Bioinf • 150

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330

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Why difference in Hisat2 and bamqc from qualimap results?

bamqc qualimap rna-seq hisat2 written 5 months ago by Bioinfo • 240 • updated 5 months ago by Biostar ♦♦ 20

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understanding contig statistics

assembly mapping reads qualimap coverage spades written 19 months ago by mary • 0 • updated 19 months ago by Brian Bushnell ♦ 15k

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586

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Abnormal coverage profile

quality qualimap rna-seq rna degradation written 2.2 years ago by Gary • 450

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1.4k

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Qualimap result interpretation

qualimap written 3.8 years ago by Aura • 0 • updated 3.8 years ago by Antonio R. Franco • 3.8k

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Recent Replies

C: bwa-mem: [bam_sort_core] merging from 0 files and 3 in-memory blocks by h.mon ♦ 19k
>input 1 and 2, corresponding to the single-end and paired-end reads If input1 are the single...
C: gene expression analysis using RNA seq data by maryam.akram001 • 0
If i use htseq-counts data that is log2(x+1) transformed then normalize it using edgeR or Deseq 2...
A: How to combine two .sam files? by h.mon ♦ 19k
Just `cat` will produce a corrupt sam file. You have two options wiht samtools: - `samtools ca...
A: How to "Randomly" Select Genes by zx8754 ♦ 5.0k
We can shuffle genes using *sample*, then *split*: # stealing inputs from @NicolasRosewick's...
C: Efficient way to convert several lists into a present/absent binary format? by Kevin Blighe ♦ 28k
The short function that I wrote behaves exactly as I intend it to. Perhaps I am not 100% understa...
C: Organizing tools/ software by Kevin Blighe ♦ 28k
> Containerized software is better for version management and > reproducibility of workflow...
C: Organizing tools/ software by Kevin Blighe ♦ 28k
I actually enjoy installing and organising these programs but I never store their location in my ...
C: Efficient way to convert several lists into a present/absent binary format? by Kevin Blighe ♦ 28k
Okay, in addition to the desired output that you posted (a few comments up), can you show what th...
C: Efficient way to convert several lists into a present/absent binary format? by stellaparker • 10
It looked to work initially, but it seems that if there is any value in the "Gene" column and the...
C: Seeking ideas and guidance for an undergraduate project by Pierre Lindenbaum ♦ 112k
https://www.biostars.org/p/257281/ https://www.biostars.org/p/128683/ https://www.biostars.org/...
C: Organizing tools/ software by dariober ♦ 9.4k
Hi- I'm not very familiar with docker and friends (they have been on my todo list for quite a whi...
A: RNA-seq samples along different time points, how to run Stringtie? by grant.hovhannisyan • 1.1k
I would run Stringtie for all the samples separately, then will merge all the GTF files together ...

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