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1,000 results • Page
6 of 20
Sort: Rank
Rank
Views
Votes
Replies
0
votes
2
replies
199
views
Help with Base quality Score Recalibration (BQSR) using GATK
GATK
BQSR
11 days ago by
sainavyav22
• 0
0
votes
1
reply
154
views
Identification of Transgene insertion sites
Transgene
Whole-Genome-Sequencing
transgene-sites
updated 11 days ago by
Ram
43k • written 11 days ago by
Cameron.walker9900
• 0
0
votes
8
replies
376
views
Error in cnetplot enrichplot package
R
updated 11 days ago by
Ram
43k • written 11 days ago by
Farhad
• 0
3
votes
9
replies
504
views
Is it Acceptable to Have Uniform Quality Scores in a FASTQ File?
FASTQ
updated 9 days ago by
Istvan Albert
100k • written 11 days ago by
Κοσμάς
• 0
0
votes
0
replies
115
views
Pairwise alignment and Ka/Ks computation
Pairwise-Alignment
Genomics
Ka-Ks
updated 11 days ago by
Ram
43k • written 11 days ago by
maxime.policarpo
▴ 200
3
votes
3
replies
221
views
Genbank vs SRA
ncbi
genbank
genomics
sra
updated 11 days ago by
Mensur Dlakic
★ 27k • written 11 days ago by
c_u
▴ 520
0
votes
0
replies
102
views
Analysis of the gene family of a genome.
Genome
gene-family
updated 11 days ago by
Ram
43k • written 11 days ago by
sansan_96
▴ 80
0
votes
0
replies
104
views
File with NCBI summary or Uniprot description
annotation
visualisation
NCBI
Uniprot
RNA
updated 10 days ago by
Ram
43k • written 11 days ago by
Amélie
• 0
0
votes
0
replies
211
views
Meta analysis of two GWAS summary statistics: one study is case-control and the other is quantitative
GWAS
Meta-analysis
updated 11 days ago by
Ram
43k • written 11 days ago by
Oak
▴ 10
1
vote
3
replies
2.5k
views
Problem to remove subset of patients with plink
plink
PED
updated 11 days ago by
chrchang523
10k • written 6.2 years ago by
Ginevra
▴ 10
2
votes
4
replies
277
views
from row count to tpm
tpm
row-count
normalization
updated 3 days ago by
Ram
43k • written 11 days ago by
michelafrancesconi9
▴ 20
1
vote
8
replies
457
views
Downsampling fastq file
downsample
fastq
3 days ago by
marco.barr
▴ 90
2
votes
3
replies
351
views
How to establish haplotype-specific gene expression levels
RNA-seq
Haplotype
updated 7 days ago by
dsull
★ 6.0k • written 24 days ago by
javanokendo
▴ 60
0
votes
1
reply
146
views
tbtool
tbtool
updated 11 days ago by
Ram
43k • written 11 days ago by
Raman
• 0
0
votes
10
replies
499
views
Low mapping rate with Salmon
RNA-seq
Salmon
Quantification
updated 3 days ago by
i.sudbery
19k • written 11 days ago by
Patadu94
• 0
3
votes
3
replies
248
views
Getting the nucleotide sequence of proteins, having their UniProt IDs
Nucleotide
Genomic
Sequence
Uniprot
Proteins
updated 11 days ago by
GenoMax
142k • written 11 days ago by
Mariana
▴ 40
0
votes
1
reply
138
views
Displaced fragment length distribution in ATAC-seq
ATAC-seq
nucleosome
fragment
updated 11 days ago by
ATpoint
82k • written 11 days ago by
enanoide
• 0
0
votes
0
replies
94
views
Help with finding conferences in immuno-informatics/virology
virology
conferences
immunology
11 days ago by
manaswwm
▴ 510
3
votes
3
replies
731
views
KissDE and batch effect
kissDE
kissplice
11 days ago by
david.b.rombaut
▴ 10
0
votes
0
replies
83
views
Filtering most similarly expressed gene (contrary to differential expression gene) with NOISeq?
NOIseq
10 days ago by
alifafiq1
• 0
76
votes
72
replies
19k
views
19 follow
Tutorial:
Clustering of DAVID gene enrichment results from gene expression studies
enrichment
david
8 days ago by
Kevin Blighe
87k
0
votes
0
replies
90
views
How to get somatic variation based on RNA-seq data?
RNA-seq
variation
somatic
11 days ago by
feather-W
• 0
2
votes
4
replies
323
views
interpretartion of a vcf file
calling
genotype
ONT
variant
diploid
9 days ago by
samuelkalandarov2002
▴ 10
0
votes
0
replies
90
views
Annotating single cell data automatically
cell
annotation
single
11 days ago by
Gerard
• 0
0
votes
0
replies
93
views
News:
Online course: DNA methylation
Pacbio
Nanopore
DnaMethylation
Evolution
11 days ago by
carlopecoraro2
★ 2.5k
0
votes
0
replies
152
views
Job:
Ensembl Plants Senior Bioinformatician
ebi
embl
genomics
ensembl
11 days ago by
Ben_Ensembl
★ 2.4k
2
votes
4
replies
353
views
What is the real meaning of relative enrichment/peak height of ChIP-seq tracks?
ChIP-seq
9 days ago by
HyperEvo
• 0
0
votes
1
reply
172
views
RNA-seq bacteria contamination
RNA-seq
updated 11 days ago by
GenoMax
142k • written 11 days ago by
sh
• 0
0
votes
2
replies
210
views
Result of running of p3_in.pl
primer3
updated 11 days ago by
GenoMax
142k • written 11 days ago by
nasri
• 0
0
votes
1
reply
152
views
FAM FILE
file
Fam
11 days ago by
Eleonora
• 0
0
votes
0
replies
81
views
Imputation advice
imputation
11 days ago by
kl
▴ 10
3
votes
5
replies
304
views
Per base sequence content error in RNAseq analysis
RNA-seq
analysis
updated 11 days ago by
GenoMax
142k • written 11 days ago by
ahmad.sajad4541
• 0
0
votes
0
replies
102
views
Trimming best practices for SNP calling
trimming
SNP
trimmomatic
11 days ago by
Enrique
• 0
3
votes
5
replies
598
views
SLURM submission problem: Indexing the Reference Genome is not done in STAR
align
RNA-Seq
linux
STAR
11 days ago by
n_navy
• 0
0
votes
0
replies
82
views
Correct way of reducing predictive model complexity
lasso
glmnet
predictvemodeling
regression
11 days ago by
sativus
▴ 20
6
votes
3
replies
202
views
Interpretting IGV output
IGV
updated 11 days ago by
Carlo Yague
8.7k • written 11 days ago by
analyst
▴ 30
0
votes
1
reply
186
views
homology modelling using swiss model
homology-modeling
swiss-model
updated 11 days ago by
colindaven
6.4k • written 12 days ago by
Ayush
• 0
0
votes
0
replies
87
views
Difficulties getting **the adjacency file** necessary for **aracne2regulon** function.
VIPER
MARINA
ARACNe
11 days ago by
Biostars2200
• 0
1
vote
5
replies
391
views
DYH17 Structure Prediction
BLAST
Protein-Structure-Prediction
10 days ago by
anasjamshed
▴ 120
0
votes
0
replies
141
views
CIRIquant: ValueError: file has no sequences defined (mode='rb') - is it SAM/BAM format? Consider opening with check_sq=False
Ciriquant
updated 11 days ago by
Carlo Yague
8.7k • written 11 days ago by
Atul K.
• 0
3
votes
2
replies
290
views
p-value and Boneferroni adjusted p-value the same in R
Bonferroni
R
Statistics
p-value
Fisher
11 days ago by
kristiewyleung
• 0
2
votes
5
replies
484
views
Marking duplicates using UMIs
Deduplication
UMI
updated 11 days ago by
i.sudbery
19k • written 12 days ago by
Lipika
• 0
0
votes
0
replies
145
views
How to extract the mutations specific to cancer after variant annotation
variant-annotation
updated 12 days ago by
Ram
43k • written 12 days ago by
sainavyav22
• 0
0
votes
0
replies
150
views
Bacterial genome alignment with mauve
Bacteria
mauve
genome
12 days ago by
rthapa
▴ 90
0
votes
0
replies
141
views
Reparametrization of .str (param penalty > 100) File from CGenFF for Ligand Simulation in GROMACS
Simulation
CGenFF
Gromacs
VMD
13 days ago by
Mamatha Y S
• 0
0
votes
0
replies
141
views
News:
upcoming online statistical courses
Statistics
R
Data-Analysis
updated 12 days ago by
Ram
43k • written 13 days ago by
carlopecoraro2
★ 2.5k
0
votes
4
replies
577
views
how to find genes that are significantly expressed in brain cortex samples
rna-seq
gene-expression
updated 13 days ago by
ATpoint
82k • written 14 days ago by
rheab1230
▴ 140
0
votes
2
replies
295
views
bam merging for archaic samples
samtools
bam
updated 12 days ago by
Ram
43k • written 13 days ago by
Matteo Ungaro
▴ 100
7
votes
6
replies
529
views
Filtering sam or bam file with maximum matching region
crisper-edited
alignment
match
12 days ago by
analyst
▴ 30
1
vote
1
reply
285
views
Removing Illumina microarray probes with no expression HumanHT-12v4
microarray
HumanHT-12v4
Illumina
updated 13 days ago by
Gordon Smyth
★ 7.1k • written 13 days ago by
Bioinformatician
• 0
1,000 results • Page
6 of 20
Recent Votes
Comment: No INFO/info value in headers
how to combine multiple RNAseq count files into a single dataframe in R and unix
Comment: Greatly speed up conda by using mamba
Greatly speed up conda by using mamba
Comment: Converting CRAM to FastQ
Parametric or non-parametric tests for qPCR significance testing between treatments?
Answer: Converting CRAM to FastQ
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Answer: visualize GSEA
by
bk11
★ 2.4k
I have made some edits in your code basically changing the position of text and commented out the line `data$text_pos <- ifelse(data$NES > …
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Pictures of code are useless. You were told to paste the code and use the 0101 button. Can you explain why you decided not to do that? If…
Comment: Differential Expression Analysis using DESeq2 in R
by
Erina
• 0
![Here is the code I am using for the analysis][1] [1]: /media/images/8a511904-6ae8-47f5-b647-ee15b02b
Answer: Clarification regarding SAM flags "mate reverse strand" (flag 16/0x10) and "read
by
swbarnes2
14k
In paired end sequencing, every read has a mate, and the flags all together tell you not only what is up with the read you are looking at, …
Comment: how to combine multiple RNAseq count files into a single dataframe in R and unix
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Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴ 750
According to the link: "When *generating* such filesets, PLINK 1.x defaults to swapping the alleles whenever A1's frequency is above (not …
Comment: TaxID mapping file
by
GenoMax
142k
nodesDB file should have been installed if you had used "Install" script for `blobtools` according to : https://blobtools.readme.io/docs/ta…
Comment: Parametric or non-parametric tests for qPCR significance testing between treatme
by
e.r.zakiev
▴ 210
obviously if the values are really sampled from a (quasi) normally-distributed values, then n doesn't matter, he could use t-test even with…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
Understood Thank you!
Comment: Converting CRAM to FastQ
by
GenoMax
142k
You can use any reference that you like at this point. Since you are planning to use GATK, you can get their version from the resource bund…
Comment: Converting CRAM to FastQ
by
Maverick
▴ 10
![enter image description here][1]I was able to get my fastq files. I can see that my reference files are cached in a hts-ref directory but…
Comment: Differential Expression Analysis using DESeq2 in R
by
swbarnes2
14k
Okay, that shows us the problem, but not what we need to solve it. But, for instance, are you sure that period after the sample name shou…
Comment: Easy way to find out which allele is minor allele from bed file?
by
bk11
★ 2.4k
In the case of MAF = 0.5, I think A1 is still the minor allele. You can check the discussion in this [link][1]. [1]: https://groups.goo…
Comment: Easy way to find out which allele is minor allele from bed file?
by
curious
▴ 750
Yes, but I think the problem is what to do when MAF = 0.5
Answer: Easy way to find out which allele is minor allele from bed file?
by
bk11
★ 2.4k
In Plink, A1 is usually a minor allele and A2 a major allele. .frq (basic allele frequency report) Produced by --freq. …
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