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1,000 results • Page
3 of 20
Sort: Votes
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Views
Votes
Replies
10
votes
9
replies
2.0k
views
How to improve fastq quality based on fastqc output ?
RNA-Seq
6.0 years ago by
Angelique
▴ 10
10
votes
13
replies
5.8k
views
How to identify DE lncRNA from RNA Seq Data?
RNA-Seq
lncrna
7.2 years ago by
Vasu
▴ 770
10
votes
11
replies
4.7k
views
Trouble Installing Genometools-1.5.1 On My Mac Ox
genome
protein-structure
10.2 years ago by
inadamj
▴ 60
10
votes
12
replies
2.0k
views
The 2013 Eisenberg and Levanon housekeeping genes list for Human is the most updated one?
genes
human
housekeeping
list
5.2 years ago by
msimmer92
▴ 300
10
votes
15
replies
6.2k
views
DIAMOND blast imported into MEGAN6 has no taxonomic assignment
blast
MEGAN6
Taxonomy
DIAMOND
7.4 years ago by
Farbod
★ 3.4k
10
votes
2
replies
2.8k
views
Standalone Blast Issue
blast
11.9 years ago by
chlazaris
• 0
10
votes
7
replies
3.7k
views
What is Pathway Analysis?
database
analysis
ontology
pathway
updated 10 months ago by
Ram
43k • written 8.1 years ago by
Pranavathiyani G
▴ 330
10
votes
10
replies
2.0k
views
Minor allele frequency
GWAS
SNPs
Alleles
updated 5.5 years ago by
Biostar
20 • written 7.4 years ago by
alessandrotestori7
▴ 420
10
votes
1
reply
4.0k
views
Assessing The Quality Of Mirna Rnaseq Data
mirna
updated 10.5 years ago by
Biostar
20 • written 11.2 years ago by
Ashutosh Pandey
12k
10
votes
8
replies
2.3k
views
Blast scores...two annotations for the same piece of sequence
alignment
updated 22 months ago by
Ram
43k • written 9.1 years ago by
friasoler
▴ 50
10
votes
8
replies
1.8k
views
File Format - Fasta
sequence
8.1 years ago by
Gabe Anderson
▴ 10
10
votes
7
replies
1.2k
views
Better DE analytic tools
RNA-Seq
DE tools
Bayesian empirical approach
6.0 years ago by
mhyunjunkang
▴ 110
9
votes
13
replies
3.4k
views
Python Script to map reads to reference sequence
sequence
python
mapping
script
reference sequence
5.0 years ago by
Fid_o
▴ 40
9
votes
5
replies
1.2k
views
how to retrieve all proteins related to cancer
proteins
8.0 years ago by
Learner
▴ 280
9
votes
7
replies
3.3k
views
Aligning Miseq With Deletions >10 Bases
alignment
miseq
next-gen
updated 10.8 years ago by
Biostar
20 • written 11.3 years ago by
Leszek
4.2k
9
votes
13
replies
1.6k
views
SNP's and Gene?
SNP
gene
4.5 years ago by
imgapgenomika
▴ 10
9
votes
16
replies
1.5k
views
I am trying to select some reference genome region of a bam file, but got an error
SAMTOOLS
updated 3.7 years ago by
lieven.sterck
15k • written 3.7 years ago by
schlogl
▴ 160
9
votes
7
replies
5.4k
views
How to combine a different sources of pathway database (KEGG, BioCarta) for Pathway analysis.
Pathway
enrichment analysis
GWAS
pathway analysis
7.9 years ago by
kmsh410
▴ 40
9
votes
10
replies
2.8k
views
About GATK4 Mutect2 runtime (Whole Exome seq)
GATK
Whole Exome Sequencing
Mutect2
3.3 years ago by
kwanghoon
▴ 20
9
votes
2
replies
3.1k
views
GEOquery Problems to Get GEO dataset
Geoquery
8.1 years ago by
Shicheng Guo
★ 9.4k
9
votes
5
replies
3.9k
views
What's the interpretation behind Pathway enrichment analysis
networks
pathway enrichment analysis
gene
updated 6.7 years ago by
Biostar
20 • written 6.8 years ago by
Chaimaa
▴ 260
9
votes
16
replies
1.9k
views
feature extraction from SNPs in R
R
gene
sequence
SNP
5.5 years ago by
bioinfo456
▴ 150
9
votes
19
replies
2.4k
views
There are any way to use a script for feed emboss with fasta sequence?
sequence
4.3 years ago by
schlogl
▴ 160
9
votes
9
replies
1.5k
views
Convert mouse amino acid location to genomic location
genome
gene
4.9 years ago by
L. A. Liggett
▴ 120
9
votes
5
replies
730
views
Prophage prediction tool
prophage
PHASTER
prediction
updated 9 months ago by
GenoMax
142k • written 9 months ago by
A_heath
▴ 160
9
votes
11
replies
4.5k
views
please someone help me with running mirdeep2
software error
mirdeep2
perl
7.6 years ago by
zizigolu
★ 4.3k
9
votes
12
replies
1.5k
views
Copy number variations analysis
R
CNV
updated 4.4 years ago by
zx8754
11k • written 4.4 years ago by
rprog008
▴ 70
9
votes
11
replies
1.5k
views
6 follow
Split up excel cell into multiple records
excel
byonic
6.8 years ago by
rshipman
▴ 30
9
votes
3
replies
7.2k
views
Statistical Distributions In Rna-Seq Data Analysis
statistics
rna
updated 5.1 years ago by
Biostar
20 • written 12.1 years ago by
Ngsnewbie
▴ 380
9
votes
2
replies
5.3k
views
Biopython Import Error
biopython
updated 12.0 years ago by
Michael Kuhn
5.0k • written 12.0 years ago by
angeles.sepulvedap
• 0
9
votes
16
replies
3.8k
views
6 follow
covert SAM to full length fasta
fasta
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
9
votes
4
replies
5.6k
views
How to analyse normalized read count?
RNA-Seq
R
updated 16 months ago by
Ram
43k • written 8.9 years ago by
pbio
▴ 150
9
votes
7
replies
3.8k
views
7 follow
Are 2 replicates per sample sufficient for RNA-seq data analysis?
RNA-Seq
R
Ngs
6.2 years ago by
Arindam Ghosh
▴ 510
9
votes
1
reply
6.1k
views
Why does MACS2 report multiple records for the same peak region?
ChIP-Seq
macs
macs2
updated 20 months ago by
Ram
43k • written 8.5 years ago by
James Ashmore
★ 3.4k
9
votes
6
replies
3.5k
views
SOAPaligner 2.21 - does it replace all Ns by Gs in reads?
Soapaligner
alignment
updated 2.6 years ago by
Ram
43k • written 9.9 years ago by
Philipp Bayer
8.4k
9
votes
5
replies
5.3k
views
Binning of reads vs. binning of contigs in metagenomics
Binning
Metagenomics
5.5 years ago by
vijinim
▴ 100
9
votes
6
replies
1.3k
views
Genotype meaning
genotype
BL21
2.8 years ago by
A_heath
▴ 160
9
votes
13
replies
15k
views
Sort bam file by coordinates using samtools
next-gen-sequencing
gene
rna-seq
updated 10 months ago by
Ram
43k • written 5.6 years ago by
Shahzad
▴ 30
9
votes
7
replies
1.3k
views
Reference genome location
reference
positions
FASTA
alignment
genome
updated 16 months ago by
barslmn
★ 2.1k • written 16 months ago by
Batel
• 0
9
votes
9
replies
4.7k
views
ATAC-seq TSS profile plot interpretation
ATAC-seq
TSS
V-plot
4.4 years ago by
nanoide
▴ 120
9
votes
20
replies
4.3k
views
Solve SAM issues flagged by Picard's ValidateSamFile
Picard
SAM
updated 13 months ago by
Ram
43k • written 5.7 years ago by
marongiu.luigi
▴ 710
9
votes
7
replies
2.4k
views
Merging BWT indices for BWA
BWA
BWT
read aligner
merge
5.5 years ago by
rgc255
▴ 60
9
votes
13
replies
2.5k
views
Reannotating a gene: Identifying translation and transcription start sites
RNA-Seq
genome
gene
7.3 years ago by
rh5118
▴ 40
9
votes
7
replies
1.9k
views
Is the sequence quality good enough?
WGS
HISEQ4000
QC
5.9 years ago by
BioinfGuru
★ 1.7k
9
votes
13
replies
2.9k
views
qRT-PCR data analysis steps and workflow
qRT-PCR
Reference genes
Normalization
DeltaCt
FC
5.2 years ago by
mohammedtoufiq91
▴ 250
9
votes
13
replies
15k
views
GC Content of Fasta file --- Python Help
sequence
7.2 years ago by
Patrick Brennan
▴ 50
9
votes
8
replies
1.7k
views
Union of unaligned fastq reads
RNA-Seq
6.9 years ago by
Jeffin Rockey
★ 1.3k
9
votes
10
replies
2.2k
views
[solved] Convert fold changes of multiple transcripts of a given gene to a single value characterising this gene
RNA-Seq
7.6 years ago by
biostart
▴ 370
9
votes
7
replies
5.6k
views
fisher test with multiple samples
statistics
updated 2.5 years ago by
Ram
43k • written 9.8 years ago by
juncheng
▴ 220
9
votes
10
replies
2.5k
views
why there is 0/0 genotyp in VCF file?
VCF
GATK
Variant
4.7 years ago by
star
▴ 350
1,000 results • Page
3 of 20
Recent Votes
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
Answer: Design matrix Differential expression analysis
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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
▴ 20
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
▴ 20
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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