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40 results • Page
1 of 1
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Rank
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Votes
Replies
1
vote
8
replies
367
views
syntax errors when running part3 all-against-all
oma
3 hours ago by
Sofia
• 0
0
votes
0
replies
51
views
How to get BEAGLE files from VCF with angsd?
angsd
vcf
populationgenetics
beagle
pcangsd
5 hours ago by
Begonia_pavonina
▴ 90
0
votes
0
replies
71
views
How to find p-values for annotated methylated regions using methylkit and genomation
NGS
bioinformatics
pvalue
annotation
methylationarray
6 hours ago by
Saransh
• 0
3
votes
3
replies
246
views
Snakemake workflow for trimmomatic
snakemake
updated 3 hours ago by
GenoMax
127k • written 1 day ago by
antoine.fauchois92
• 0
0
votes
0
replies
143
views
Job:
PhD project: Analysis Of Genomics And Epigenomics Data In Mice And Humans To Clarify The Identity Of Plasmacytoid Dendritic Cells And Their Physiolog…
bioinformatics
dendritic
system
cells
immune
multiomics
12 hours ago by
aitor.gonzalez
▴ 30
1
vote
1
reply
161
views
My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
R
ENSEMBL
DESeq2
updated 17 hours ago by
GenoMax
127k • written 18 hours ago by
rgomez
• 0
0
votes
0
replies
100
views
Which ATAC-seq SAM/BAM fields are required for bigwig generation by deeptools bamCoverage?
SAM
BAM
Fields
bamCoverage
deeptools
18 hours ago by
Deep
• 0
0
votes
2
replies
175
views
Gene duplicate
monocle3
updated 20 hours ago by
ATpoint
71k • written 21 hours ago by
alghezim1
• 0
0
votes
0
replies
117
views
HiC analysis in R
R
HiC
updated 21 hours ago by
Ram
38k • written 22 hours ago by
gitprohub4
• 0
0
votes
1
reply
169
views
TCGA-BRCA tissue and RNAseq problem
NIH
RNAseq
GDC
TCGA-BRCA
updated 7 hours ago by
pinheirofabiano
▴ 10 • written 1 day ago by
reventropy2003
• 0
0
votes
1
reply
165
views
R package for functional enrichment and depletion analysis
enrichment
depletion
updated 21 hours ago by
rpolicastro
11k • written 1 day ago by
lessismore
★ 1.3k
2
votes
2
replies
172
views
How to remove duplicate reads after ONT basecalling from fastq.gz files
fastq
22 hours ago by
Darrenjdd
• 0
0
votes
2
replies
154
views
Gene family classification using RNA-seq data
RNA_seq
gene_expression
gene_family
6 hours ago by
Dion
• 0
0
votes
3
replies
216
views
How to deal with the probe id mapping to multiple gene ids?
match
microarray
affymetrix
probe
gene
13 hours ago by
dare_devil
★ 1.7k
3
votes
3
replies
228
views
PTM-aware protein folding / docking
docking
protein-structure
folding
updated 23 hours ago by
Mensur Dlakic
★ 23k • written 3 days ago by
LChart
2.2k
0
votes
2
replies
180
views
Quality control of Chip-seq data (NRF and PCB)
control
library
quality
PCB
Chip-seq
NRF
3 hours ago by
michelafrancesconi9
• 0
1
vote
4
replies
332
views
Snakemake doesn't recognize output files even though they are created
python
Snakemake
19 hours ago by
DdogBoss
• 0
0
votes
0
replies
106
views
Nucleotide substitution model and neighbor-joining tree
phylogeny
substitution
mega
neighbor-joining
modeltest
3 hours ago by
poecile.pal
▴ 50
1
vote
4
replies
408
views
SKAT in R
pvalue
skat
snp
7 hours ago by
Eliza
▴ 20
1
vote
7
replies
520
views
Dependent p values
pvalue
snp
Gene
8 hours ago by
Eliza
▴ 20
8
votes
8
replies
1.3k
views
Tool:
pyCirclize - Circular visualization in Python
visualization
circos
matplotlib
genome
python
updated 4 hours ago by
karenkvn
▴ 40 • written 3 months ago by
moshi
▴ 110
0
votes
2
replies
306
views
LDSC correlation calculate confidence intervals
correlation
intervals
confidence
genetic
LDSC
19 hours ago by
YL
▴ 10
1
vote
3
replies
1.5k
views
How to get aligned protein data from DNA sequences.
protein
alignment
DNA
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
samar.bt
• 0
7
votes
4
replies
2.8k
views
Why Chip-seq data cross correlation plot has fragment_lenth cross correlation peak and read-length peaks
chip-seq
quality-control
cross correlation
updated 22 hours ago by
Daniel
• 0 • written 3.8 years ago by
harrypotterandsbt
▴ 110
5
votes
4
replies
2.2k
views
strand specificity of TFBS
motif
transcription-factor
TFBS
updated 23 hours ago by
Ram
38k • written 7.4 years ago by
Chris Gene
▴ 80
4
votes
8
replies
6.4k
views
SNPs located in promoter region. OR exon, intron, 5'UTR, 3'UTR
SNP
updated 21 hours ago by
Ram
38k • written 7.3 years ago by
wanghaho9797
• 0
31
votes
34
replies
5.7k
views
11 follow
Forum:
pros- and cons- : programming skills vs. GUI
programming
lecture
updated 21 hours ago by
Ram
38k • written 7.3 years ago by
TriS
★ 4.6k
6
votes
5
replies
2.1k
views
Forum:
Bioinformatics course good for microbiology student or not?
career
updated 21 hours ago by
Ram
38k • written 7.3 years ago by
cheeesu
▴ 10
0
votes
0
replies
1.9k
views
Job:
PhD Studentships @ University of Glasgow [International students can also apply]
phd
updated 21 hours ago by
Ram
38k • written 7.3 years ago by
umer.zeeshan.ijaz
★ 1.8k
0
votes
0
replies
1.3k
views
Job:
PhD Studentship in bioinformatics
next-gen
RNA-Seq
updated 21 hours ago by
Ram
38k • written 7.3 years ago by
david.swarbreck
• 0
3
votes
9
replies
2.9k
views
Need recommendation for a virtual machine or linux cluster for ngs analysis
ngs
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
bioguy24
▴ 220
1
vote
7
replies
2.4k
views
Forum:
Bioinformatics & Virology or Immunology.
immunology
virology
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
jmt89.lp
• 0
1
vote
1
reply
4.2k
views
How to Determine the Most Conserved Sequence from BLAST Result?
blast
sequence-alignment
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
Bahrani
▴ 30
3
votes
4
replies
4.8k
views
How to visualize sequence quality control distribution
sequence
Fastq
R
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
faizlotfy
▴ 30
2
votes
1
reply
1.5k
views
ensemble illumina tissues aligned rnaSeq
alignment
RNA-Seq
gene
ISOFORM
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
fk566938
▴ 10
79
votes
34
replies
7.7k
views
15 follow
Forum:
Do bioinformaticians often break molecular biologists' hearts by being the first author?
authorship
career
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
sentausa
▴ 650
0
votes
1
reply
1.4k
views
TMREC(Transcription factor and miRNA regulatory cascade in human diseases) database
transcription-factors
database
updated 21 hours ago by
Ram
38k • written 7.4 years ago by
mscbioinfo2014
• 0
4
votes
4
replies
2.1k
views
What protein structure do human proteins refer to?
protein
protein-structure
updated 23 hours ago by
Ram
38k • written 7.4 years ago by
jcrapser
▴ 10
8
votes
4
replies
1.7k
views
Forum:
Tutorials for families of cancer patients
diagnosis
cancer
updated 23 hours ago by
Ram
38k • written 7.4 years ago by
gregory.louie
▴ 70
0
votes
2
replies
3.4k
views
Interproscan nucleotide sequence scanning
software-error
sequence
updated 23 hours ago by
Ram
38k • written 7.4 years ago by
waqasnayab
▴ 230
40 results • Page
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Recent Votes
Answer: Snakemake workflow for trimmomatic
C: Adjust for covariates
Comment: syntax errors when running part3 all-against-all
Picard LiftOver rejecting all Variants
Comment: pyCirclize - Circular visualization in Python
Answer: What is the major problem with this pipeline of SNPs analysis?
pyCirclize - Circular visualization in Python
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Comment: Snakemake workflow for trimmomatic
by
GenoMax
127k
Please accept this answer (green check mark) to provide closure to this thread.
Comment: syntax errors when running part3 all-against-all
by
Sofia
• 0
When I started with the gz all-vs-all files for CHICK and ANOCA and started oma, everything ran fine, I got output. Then, in the same direc…
Comment: Quality control of Chip-seq data (NRF and PCB)
by
michelafrancesconi9
• 0
Can you explain me better? Because for the NRF I do : a) samtools view -c .bam b)samtools view -c -F 260 .bam then b/a and as a bam fi…
Comment: pyCirclize - Circular visualization in Python
by
karenkvn
▴ 40
Thank you for responding so quickly - this works perfectly!
Comment: pyCirclize - Circular visualization in Python
by
moshi
▴ 110
Please install Biopython with v1.80 or higher. If biopython>=1.80, there should be no errors.
Comment: Gene family classification using RNA-seq data
by
Dion
• 0
well, I have been given the task to retrieve gene family/categorization. I found sveral papers on family classification, but no actual pack…
Comment: pyCirclize - Circular visualization in Python
by
karenkvn
▴ 40
Thank you for this wonderful programme! I am plotting a bacterial chromosome and find that when I plot the NC_000913 chromosome using the e…
Comment: SKAT in R
by
Eliza
▴ 20
@acvill can you sujjest maybe pther tools , methods for this ? ( also for every SNP i have data how many patients had the hetro/homozygous…
Comment: TCGA-BRCA tissue and RNAseq problem
by
pinheirofabiano
▴ 10
Go to https://portal.gdc.cancer.gov > Exploration > select TCGA and the cancer type you want > select case ID to download the files and hav…
Comment: Snakemake workflow for trimmomatic
by
antoine.fauchois92
• 0
Thank you very much for your reply ! It's working now !
Comment: Dependent p values
by
Eliza
▴ 20
@lchart I'm sorry for asking another of questions but I'm new to this field , can you please explain a little more how to use SKAT , saige…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
similar question [here][1], [here][2] and [here][3] [1]: https://support.bioconductor.org/p/54838/ [2]: https://support.bioconductor.…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
dare_devil
★ 1.7k
@genomax I have used the same platform file only. If you look at probe id and their corresponding `Gene Symbol` or `ENTREZ_GENE_ID` you can…
Comment: How to deal with the probe id mapping to multiple gene ids?
by
GenoMax
127k
Where are you seeing this? [Platform file for this array][1] on GEO has these names uniquely assigned. [1]: https://www.ncbi.nlm.nih.go…
Comment: My keys are all ENSEMBL, but R says they are not valid keys for ENSEMBL
by
rpolicastro
11k
`Org.Mm.eg.db` is the mouse organism database, but your ENSEMBL IDs are for human genes. Mouse ensembl ids start with `ENSMUSG`. You proba…
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