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18 results • Page
1 of 1
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2
votes
2
replies
2.6k
views
Pindel Segmentation Fault Error
pindel
updated 18 hours ago by
Ruqaiya
• 0 • written 10.2 years ago by
Yuelin
▴ 20
2
votes
3
replies
724
views
Issues with Mixture file when using CIBERSORTx
Deconvolution
CIBERSORTx
updated 14 hours ago by
vjanve
• 0 • written 7 months ago by
mateomejias
• 0
9
votes
9
replies
506
views
High Malat-1 expression in single cell data
single-cell
updated 11 hours ago by
Ram
43k • written 5 days ago by
carolofharvest
▴ 30
2
votes
3
replies
229
views
Design matrix Differential expression analysis
RNA-seq
Differential-expression
updated 4 hours ago by
Gordon Smyth
★ 7.1k • written 1 day ago by
SHN
▴ 40
0
votes
4
replies
227
views
Segmentation error while using a tool
smalt
updated 18 hours ago by
Mensur Dlakic
★ 27k • written 1 day ago by
Ruqaiya
• 0
2
votes
2
replies
173
views
Analysis of intronic reads included scRNA-seq data
single-cell
updated 11 hours ago by
Ram
43k • written 1 day ago by
carolofharvest
▴ 30
0
votes
1
reply
169
views
Extracting mutation status from MAF files - TCGA
TCGA
maf
mutation
updated 23 hours ago by
Thanujay S
• 0 • written 1 day ago by
yahn
• 0
0
votes
2
replies
142
views
creating batch colum for batch correction
batch-correction
combat
updated 11 hours ago by
Ram
43k • written 18 hours ago by
Expert
▴ 10
0
votes
1
reply
138
views
visualize GSEA
barplot
RNA-seq
GSEA
enrichment
updated 11 hours ago by
Ram
43k • written 1 day ago by
Rob
▴ 170
0
votes
1
reply
132
views
filtering before dada2
bbduk
qiime2
dada2
metagenomic
updated 23 hours ago by
Ram
43k • written 1 day ago by
Valentina
• 0
1
vote
1
reply
131
views
DSEQ2 analysis
DESEQ2
logfoldchange
updated 11 hours ago by
Ram
43k • written 1 day ago by
adi.gershon1
• 0
4
votes
2
replies
129
views
GRCh38.gmap file
gnomix
gmap
7 hours ago by
lorena9132
▴ 10
0
votes
1
reply
116
views
Association study using SNP data
Association
Allele
Parentage
SNP
updated 8 hours ago by
Mathew
▴ 30 • written 16 hours ago by
drajangirija
• 0
0
votes
0
replies
90
views
Quetion regarding WGCNA
WGCNA
Network-construction
updated 23 hours ago by
Ram
43k • written 1 day ago by
deepak180001
• 0
0
votes
0
replies
67
views
Homer motif analysis
Homer
19 hours ago by
daffodil
▴ 10
0
votes
0
replies
66
views
Help with DGEList function
DGEList
R
updated 11 hours ago by
Ram
43k • written 19 hours ago by
Natali
• 0
0
votes
0
replies
60
views
LD-prune variants while maintaining a list of SNPs
snp
vcf
filtering
independent
linkage
9 hours ago by
Jautis
▴ 530
0
votes
0
replies
17
views
Forum:
Seeking Bioinformatics/Drug Design Opportunities - PhD in Pharmacology with Experience in RNA-seq, CADD & Deep Learning Molecular Generation
search
job
1 hour ago by
tulip
• 0
18 results • Page
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Recent Votes
Answer: GRCh38.gmap file
Comment: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: GRCh38.gmap file
Answer: Design matrix Differential expression analysis
A: PCA plot from read count matrix from RNA-Seq
A: PCA plot from read count matrix from RNA-Seq
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Recent Replies
Comment: Design matrix Differential expression analysis
by
Gordon Smyth
★ 7.1k
> When is it recommended to use the design <- cbind(Intercept=1,Group=c(-1,-1,-1,1,1,1)) It is not recommended. No such code appears anywh…
Comment: GRCh38.gmap file
by
lorena9132
▴ 10
Hi Mathew, The .txt files provided in the link differ from the .gmap files, but after several attempts, I succeeded in generating the .gma…
Answer: GRCh38.gmap file
by
Mathew
▴ 30
Hi, I have spent some time searching for a GRCH38 map file for you. I have found a certain publication that uses a hg38 genetic map file…
Answer: Association study using SNP data
by
Mathew
▴ 30
Hi, You asked three questions so I will attempt to help the best I can **What should be the optimal GC score cutoff** It sounds li…
Comment: Design matrix Differential expression analysis
by
SHN
▴ 40
Thank you for your explanation. I am working on the cell lines and I am investigating the effect of the treatment on the expression level, …
Answer: Issues with Mixture file when using CIBERSORTx
by
vjanve
• 0
I ran into same issue of "duplicated gene symbol(s)": 1: In CIBERSORTxFractions(sigmatrix = sigmatrix, mixture = mixture, : 22292 dup…
Comment: creating batch colum for batch correction
by
Expert
▴ 10
Thank you for your response. These samples were collected from the same patient at different time points(day 0, 8 and 18) and these are ind…
Comment: creating batch colum for batch correction
by
ATpoint
82k
Not sure I follow. Can you first of all describe which comparisons you want to make, pretending there was no batch effect at all. Write dow…
Comment: Pindel Segmentation Fault Error
by
Ruqaiya
• 0
This the tool still problematic?
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
Thank you for the advice, i'll keep that in mind.
Comment: Segmentation error while using a tool
by
Ruqaiya
• 0
I am trying to reproduce some bioinformatics data from a research paper-[this paper][1] as i was asked to work on an MRSA bioinfo project, …
Answer: Segmentation error while using a tool
by
Mensur Dlakic
★ 27k
Most likely you didn't do anything wrong. Going by your previous post that you have only 8 GB of RAM, the most likely reason is the lack of…
Comment: Segmentation error while using a tool
by
Thanujay S
• 0
Hey @Ruqaiya! Can you please give more details on why smalt is opted here? According to what I can see, the tool has become obsolete! Why …
Comment: Extracting mutation status from MAF files - TCGA
by
Thanujay S
• 0
Hey! Can you explain the question further? What have you tried?
Comment: Downloading older version of a tool
by
Ruqaiya
• 0
I tried the 2nd option only. I got the files of older version from the author but that version isn't working on my WSL, it's showing Segmen…
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