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1,000 results • Page
1 of 20
Sort: Votes
Rank
Views
Votes
Replies
23
votes
22
replies
36k
views
6 follow
Converting VCF to PLINK .bed binary fileset to check for pedigree errors with KING: How do conversion tools make the PLINK .fam file, without asking …
plink
vcf
fam
gatk
vcftools
updated 9 weeks ago by
Nicole
• 0 • written 4.8 years ago by
gaelgarcia
▴ 250
19
votes
15
replies
25k
views
8 follow
Converting SNP from chr:pos to rs number using PLINK?
plink
SNP
updated 6 months ago by
Ram
37k • written 7.1 years ago by
dam4l
▴ 180
18
votes
19
replies
1.5k
views
6 follow
Extremely important marker gene has many reads based on IGV viewer but no quantified reads
rna-seq
sequencing
igv
alignment
next-gen
updated 9 weeks ago by
Ram
37k • written 4.1 years ago by
rbkh09
• 0
18
votes
7
replies
746
views
How to calculate if statistically a variable of a bulk RNA-seq affects the comparison of interest?
DESeq2
Variable
RNA-seq
4 months ago by
Rafael Soler
★ 1.1k
16
votes
38
replies
15k
views
Differential gene Analysis by Limma
Limma
Microarray
R
updated 9 months ago by
Ram
37k • written 8.0 years ago by
Mo
▴ 920
14
votes
5
replies
2.6k
views
bioinformatics basic training
genome
Tutorial
updated 11 months ago by
Ram
37k • written 8.2 years ago by
f.muoghalu
• 0
12
votes
8
replies
547
views
Align 16S sequence to a reference
16S
sequence
alignment
updated 4 months ago by
Matthias Zepper
2.9k • written 4 months ago by
A_heath
▴ 120
12
votes
13
replies
2.1k
views
Gene Expression and Systems Biology (homework)
gene
homework
updated 8 weeks ago by
Ram
37k • written 7.6 years ago by
sarathkurichiyil
• 0
11
votes
9
replies
2.0k
views
samtools piping with awk/ bash commands -> Wonky things happen!!!
bash
samtools
awk
updated 6 weeks ago by
Ram
37k • written 7.6 years ago by
QVINTVS_FABIVS_MAXIMVS
★ 2.5k
10
votes
5
replies
6.1k
views
how to remove asterisk characters from a translated sequences (fasta format)?
sequencing
Assembly
alignment
updated 5 months ago by
Ram
37k • written 7.4 years ago by
seta
★ 1.7k
10
votes
2
replies
333
views
any script that can do this task
shell-script
updated 10 months ago by
Ram
37k • written 10 months ago by
adyashapanda04
▴ 10
10
votes
11
replies
8.1k
views
How to adjust my manhattan plot to look better?
qqman
manhattan
R
updated 8 months ago by
Ram
37k • written 7.9 years ago by
SheelS
▴ 40
10
votes
8
replies
1.8k
views
Blast scores...two annotations for the same piece of sequence
alignment
updated 7 months ago by
Ram
37k • written 7.9 years ago by
friasoler
▴ 30
9
votes
4
replies
5.2k
views
How to analyse normalized read count?
RNA-Seq
R
updated 4 weeks ago by
Ram
37k • written 7.7 years ago by
pbio
▴ 150
9
votes
2
replies
339
views
Answer needed urgently
Deep
updated 4 months ago by
Mensur Dlakic
★ 22k • written 4 months ago by
Deepak
• 0
9
votes
1
reply
5.3k
views
Why does MACS2 report multiple records for the same peak region?
ChIP-Seq
macs
macs2
updated 5 months ago by
Ram
37k • written 7.3 years ago by
James Ashmore
★ 3.4k
9
votes
7
replies
725
views
Reference genome location
reference
positions
FASTA
alignment
genome
updated 4 weeks ago by
barslmn
★ 1.2k • written 5 weeks ago by
Batel
• 0
9
votes
9
replies
1.2k
views
Which hg38 file?
reference
hg38
NCBI
updated 5 months ago by
appropiate
▴ 80 • written 6 months ago by
amy__
▴ 50
9
votes
7
replies
652
views
ChIP-seq; investigate binding within region of tRNA genes
tRNA
ChIP
nf-core
ChIP-seq
updated 8 months ago by
Ram
37k • written 9 months ago by
2138493o
▴ 20
9
votes
4
replies
1.9k
views
[Code] Converte fasta/fa files to fastq
perl
fastq
sed
fasta
updated 5 months ago by
Ram
37k • written 7.2 years ago by
Shicheng Guo
★ 9.2k
9
votes
1
reply
3.2k
views
RNA-SeQC, EVER-seq, RSeQC and CollectRnaSeqMetrics, which to use and *why*?
RNA-Seq
qc
updated 6 months ago by
Ram
37k • written 7.7 years ago by
Niek De Klein
★ 2.6k
9
votes
14
replies
3.6k
views
Explanation on Paired end single index for RNA seq
RNA-Seq
updated 10 months ago by
Ram
37k • written 8.0 years ago by
hothriananya
▴ 70
9
votes
4
replies
348
views
RNA seq, secreted protein
protein
gene
secreted
updated 8 weeks ago by
Joe
20k • written 8 weeks ago by
Rob
▴ 160
8
votes
11
replies
1.1k
views
using STAR instead of HISAT2
STAR
updated 6 months ago by
Ram
37k • written 6 months ago by
Chris
▴ 60
8
votes
3
replies
4.9k
views
Bioinformatics project for a beginner
projects
updated 6 months ago by
Ram
37k • written 7.1 years ago by
dharshank.1096
▴ 30
8
votes
5
replies
11k
views
samtools tview symbols
samtools
updated 3 months ago by
Ram
37k • written 7.6 years ago by
biolab
★ 1.4k
8
votes
4
replies
1.7k
views
using different tools to identify differential exprssed genes
rna-seq
RNA-Seq
R
updated 4 months ago by
Ram
37k • written 7.4 years ago by
Anushka
▴ 20
8
votes
9
replies
2.0k
views
6 follow
Big difference in estimated duplicate reads between forward and reverse of paired-end RNA-seq
RNA-Seq
duplication
fastqc
updated 7 months ago by
rohitsatyam102
▴ 690 • written 3.2 years ago by
Eric Lim
★ 2.0k
8
votes
9
replies
2.6k
views
error in rstudio
csv
matrix
rstudio
updated 4 months ago by
Ram
37k • written 7.5 years ago by
fi1d18
★ 4.1k
8
votes
3
replies
445
views
Package installation error using Bioconda
antismash
Bioconda
8 weeks ago by
A_heath
▴ 120
8
votes
5
replies
3.0k
views
Is it possible to guess sequencing platform used based on a FASTQ/BAM file?
BAM
FASTQ
updated 6 weeks ago by
Ram
37k • written 7.6 years ago by
Andrew
▴ 60
8
votes
6
replies
691
views
How to apply bioinformatic in vaccine design?
Vaccine
updated 12 weeks ago by
Dunois
★ 2.2k • written 12 weeks ago by
Jean
▴ 30
8
votes
20
replies
1.7k
views
Converting runpsipred Script to Work on Windows OS
psipred
windows
updated 8 months ago by
Ram
37k • written 4.5 years ago by
Bara'a
▴ 270
7
votes
4
replies
963
views
Error: missing values and NaN's not allowed if 'na.rm' is FALSE
Genome
Software
6 months ago by
sunnykevin97
▴ 970
7
votes
7
replies
1.0k
views
LRT test with DESeq2 and how to interpret the results
significant
LRT
DESeq2
genes
RNA-Seq
updated 6 months ago by
krushnach80
★ 1.1k • written 9 months ago by
Maka
▴ 20
7
votes
8
replies
1.6k
views
How can we time a recent gene duplication event using (neutral?) DNA mutations as molecular clock?
molecular-clock
gene-duplication
phylogeny
updated 3 days ago by
Ram
37k • written 7.7 years ago by
xiaofeng.dong12
▴ 20
7
votes
10
replies
3.3k
views
Choosing phylogenetic approaches
phylogeny
updated 12 months ago by
Ram
37k • written 8.4 years ago by
Yongjie Zhang
▴ 100
7
votes
4
replies
3.2k
views
Abra for indel realignment
realignment
abra
gatk
updated 11 months ago by
Ram
37k • written 8.2 years ago by
Danielk
▴ 620
7
votes
10
replies
3.7k
views
PSMC using haploid genomes
haploid
genome
PSMC
updated 11 months ago by
Ram
37k • written 8.3 years ago by
biogirl
▴ 200
7
votes
8
replies
3.3k
views
remove duplicated entries from BLAST result file
blast
alignment
updated 6 weeks ago by
Ram
37k • written 7.7 years ago by
Kumar
▴ 150
7
votes
6
replies
2.1k
views
Optical duplicates?
duplicate
optical
updated 11 months ago by
flyamer
▴ 60 • written 20 months ago by
abascalfederico
★ 1.2k
7
votes
4
replies
1.3k
views
microarray gene datasets
gene
updated 3 days ago by
Ram
37k • written 7.7 years ago by
bioinfo
▴ 60
7
votes
5
replies
3.6k
views
Trinity de novo transcript assembly too many transcripts
RNA-Seq
Assembly
updated 6 months ago by
Ram
37k • written 7.6 years ago by
Mehmet
▴ 780
7
votes
15
replies
4.4k
views
6 follow
blastn error - NCBI C++ Exception
assembly
blast
alignment
updated 10 months ago by
lieven.sterck
14k • written 22 months ago by
sunnykevin97
▴ 970
7
votes
9
replies
703
views
Tools to check the length of isoforms in reference transcript
transcript
histogram
isoform
3 months ago by
Jjbox
▴ 30
7
votes
4
replies
2.8k
views
Mapping BAM/SAM file back to reference?!?!
SAM
reference
BWA
BAM
updated 5 months ago by
Ram
37k • written 7.3 years ago by
ab.tsubaki
▴ 50
7
votes
4
replies
931
views
Are there mm39/GRCm39 blacklist regions?
blacklist
8 months ago by
Ian
5.9k
7
votes
2
replies
3.1k
views
Counting reads for gene transcripts with overlapping loci
RNA-Seq
gene
R
updated 4 weeks ago by
Ram
37k • written 7.7 years ago by
Ruet
▴ 70
7
votes
8
replies
2.8k
views
DEseq2 design matrix with 3 factors
rna-seq
deseq2
Forum
updated 7 months ago by
krushnach80
★ 1.1k • written 2.7 years ago by
kand3e
▴ 50
7
votes
7
replies
920
views
GSEA analysis
Hi
updated 9 months ago by
cvenkat95
▴ 10 • written 9 months ago by
sarahawan92
▴ 10
1,000 results • Page
1 of 20
Recent Votes
Comment: fastqc: Per base sequence content
Comment: fastqc: Per base sequence content
Comment: Size of two scRNA-Seq conditions
Answer: Dealing with missing (NA) values in my 450K methylation array dataset
What type of database does gnomAD use?
What type of database does gnomAD use?
Answer: What type of database does gnomAD use?
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Comment: Size of two scRNA-Seq conditions
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Thank you so much for your answer! Here is the structure of 2 matrix objects of two conditions. Condition 1 has 19760 cells meanwhile condi…
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★ 22k
Definitely not normal. It doesn't seem that BBmap is taking any reads in. That's why your `num reads` and `num bases` are all zeros, which…
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★ 22k
I have no idea what cutoff is in this context, nor what you mean by `original` values. I don't know how you got those values for means. I …
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by
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Any chance it is an indentation issue that isn't caused by what you aren't sharing here? See [here](https://groups.google.com/g/snakemake/c…
Comment: Size of two scRNA-Seq conditions
by
rpolicastro
11k
More important would be the cell QC stats (such as reads per cell and number of unique features detected per cell), the number of cells per…
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by
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You could omit the NA values : `pca <- prcomp(na.omit(t(exprs(GSE65820))))`
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37k
This post does not fit the theme of this forum.
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I imagine you can filter on things like E.C. numbers and domain names using `bash`, `awk`, `R`, or some other code.
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See: https://www.elegansvariation.org/data/release/20220216
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I think this is to be expected based a report I was able to find online <https://uu.diva-portal.org/smash/get/diva2:1608120/FULLTEXT01.pd…
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by
GenoMax
125k
Unless the kit directions tell you to remove remove the initial 10-15 bp you may as well leave them alone. Data should align would be my in…
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