chastity score Posts

Latest

Open

RNA-Seq

ChIP-Seq

SNP

Assembly

Tutorials

Tools

Jobs

Forum

Planet

All »

Home

Welcome to Biostar! about • faq • rss

Community

Log In

Sign Up

Add New Post

Showing selected topics • reset

or Classic search

votes

answer

2.4k

views

answer

Should I use reads with good quality but failed-vendor flag?

chastity score sam vendor failed sam flag written 4.6 years ago by Tao • 420 • updated 4.6 years ago by ablanchetcohen • 1.2k

Recent Votes

Recent Locations • All »

United States, 3 minutes ago
United States, 6 minutes ago
Spain, 18 minutes ago
Dhaka University, 18 minutes ago
Canada, 19 minutes ago
Stoke Therapeutics, Inc, 20 minutes ago

Recent Awards • All »

Appreciated to Pierre Lindenbaum ♦ 133k
Appreciated to Kevin Blighe ♦ 69k
Teacher to Istvan Albert ♦♦ 86k
Good Answer to Mensur Dlakic • 8.2k
Teacher to antonioggsousa • 1.9k
Teacher to WouterDeCoster ♦ 45k

Recent Replies

C: Am I unnecessarily 'missing' a high number of true-positive DE genes? Or do I ju by Gordon Smyth • 2.1k
The default settings for filterByExpr are specifically designed to keep as many genes in the anal...
C: Extracting cells only from one condition (Seurat) by Rosana.babu • 0
Try: seurat.subset <- subset(x = epithelial, subset = (stim == "Healthy" & stim == "Others...
C: How to interpret a single cell RNA-seq experiment with 10 times less cells but c by rpolicastro ♦ 3.2k
Assuming Cell Ranger worked correctly, it likely means few cells were actually captured by the Ch...
C: STAR vs HISAT2 comparison RNA-Seq reads by GenoMax ♦ 95k
> I want to compare the results of both aligners. In terms of what (accuracy/reproducibility)...
C: Pac bio assembler by juanjo75es • 80
I think [Flye][1] is a good one but I have not tested it with Pacbio data. [1]: https://githu...
C: How to get gene level of differential expression from 2 color channel array with by Gordon Smyth • 2.1k
You have detected dye bias. Dye effect = dye bias. What you see is what is to be expected. Agilen...
C: Get top-contribution variant name for PCA result by luongthang1908 • 50
Thank you so much for your help. I will try the fviz_pca_biplot function to see how I can do the ...
C: Am I unnecessarily 'missing' a high number of true-positive DE genes? Or do I ju by bkleiboeker • 10
That's great to hear, thank you!
C: How to process metatranscriptomics data by _r_am ♦ 32k
What have you tried? What do you plan to achieve with this analysis? That will outline your appro...
C: Am I unnecessarily 'missing' a high number of true-positive DE genes? Or do I ju by ATpoint ♦ 44k
This filter has defaults that apply if you do not set a value. The only important thing is that y...
C: Am I unnecessarily 'missing' a high number of true-positive DE genes? Or do I ju by bkleiboeker • 10
I have also experimented with the `filterByExpr()` function but was unaware that it automated thi...
C: NGS RNA-Seq Analysis Pipeline Tophat vs STAR by _r_am ♦ 32k
I saw something today that reminded me of your code: The NASA RNAseq pipeline scripts are entangl...

Content

Help

About
FAQ

Access

RSS
Stats
API

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Traffic: 1145 users visited in the last hour