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231 results • Page
2 of 5
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3
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4.1k
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Beagle Imputation Markers List
imputation
updated 9 hours ago by
Ram
38k • written 9.7 years ago by
avik
▴ 60
2
votes
3
replies
488
views
samtools mpileup error - 1 samples in 1 input files
samtools
BAM
mpileup
SAM
updated 4 hours ago by
Ram
38k • written 14 months ago by
joseph.kelly.94
▴ 10
0
votes
3
replies
205
views
BWA-mem not working with Snakemake + singularity
snakemake
bwa
singularity
updated 1 day ago by
Jeremy Leipzig
21k • written 1 day ago by
brunobsouzaa
▴ 800
0
votes
3
replies
292
views
Change accession number to chromosome number in reference genome
fasta
chromosome
updated 6 days ago by
Ram
38k • written 7 days ago by
Tsigabu
• 0
0
votes
3
replies
2.2k
views
Limma, lmFit, array weight
R
updated 5 days ago by
Ram
38k • written 7.8 years ago by
jl.juluan
• 0
0
votes
3
replies
475
views
Merging compressed fastq files based on a conditions defined in a csv file
bash
linux
updated 6 days ago by
Ram
38k • written 12 months ago by
D
• 0
0
votes
3
replies
846
views
Running SortMeRNA on Multiple Files
SortMeRNA
RNA-Seq
updated 4 hours ago by
Ram
38k • written 14 months ago by
Rebecca
• 0
1
vote
3
replies
4.6k
views
Wgcna -Dilemma In Choosing Soft Threshold
r
updated 2 days ago by
Ram
38k • written 9.6 years ago by
pixie@bioinfo
★ 1.4k
0
votes
2
replies
534
views
R script for bubble chart
bubble-chart
R
updated 5 hours ago by
Ram
38k • written 13 months ago by
adyashapanda04
▴ 10
0
votes
2
replies
162
views
How I know the genome assembly quality by the low coverage Pacbio data ?
genome
Pacbio
16 hours ago by
wdpang
• 0
0
votes
2
replies
188
views
scATAC-seq workflow
Signac
scATAC-seq
3 days ago by
bioinformatics.girl
• 0
0
votes
2
replies
209
views
merging and annotating bcf files for variant calling
vcf
bcf
bcftools
variant-calling
updated 1 day ago by
Ram
38k • written 10 days ago by
pr.khavari
• 0
3
votes
2
replies
1.5k
views
parsing the samtools view out put
RNA-Seq
updated 5 days ago by
Ram
38k • written 7.8 years ago by
fi1d18
★ 4.1k
0
votes
2
replies
119
views
Find corresponding branch from gene tree in species tree
phylogeny
family-tree
gene
species
phylogenetics
9 hours ago by
Charlotte West
▴ 40
8
votes
2
replies
5.0k
views
Differential gene expression analysis in Python
python
R
updated 4 hours ago by
Ram
38k • written 15 months ago by
Leendert
▴ 30
0
votes
2
replies
1.4k
views
Intron orders transcripts like encoded amino acid
mRNA
amino-acid
RNA-Seq
intron
transcript
updated 9 hours ago by
Ram
38k • written 7.8 years ago by
kevberm
• 0
3
votes
2
replies
183
views
WGCNA gene selection: gene significance or LASSO?
LASSO
WGCNA
updated 6 days ago by
rpolicastro
11k • written 7 days ago by
janinubinu
• 0
4
votes
2
replies
229
views
Analyzing bulk RNA-seq
RNAseq
updated 6 days ago by
swbarnes2
13k • written 6 days ago by
Zaid
• 0
0
votes
2
replies
2.8k
views
Bismark out put in IGV
IGV
bisulfite-seq
updated 5 days ago by
Ram
38k • written 7.8 years ago by
kanwarjag
★ 1.2k
0
votes
2
replies
312
views
Network analysis for two Factors
score
protein
network
chip-seq
analysis
3 days ago by
Ankit
▴ 390
1
vote
2
replies
2.7k
views
tophat: importance of mate-inner-distance parameter
tophat
RNA-seq
updated 2 days ago by
Ram
38k • written 7.8 years ago by
tospo
▴ 50
0
votes
2
replies
2.5k
views
program to pull out 5'and 3'utr from cds file
utr
cds
updated 1 day ago by
Ram
38k • written 7.9 years ago by
vigneshprbh37
▴ 30
0
votes
2
replies
460
views
Looking for a Bioinformatics Certification course
certification
courses
updated 4 hours ago by
Ram
38k • written 13 months ago by
digestize
▴ 20
0
votes
2
replies
403
views
snakemake input wildcards
python
Snakemake
updated 4 hours ago by
Ram
38k • written 15 months ago by
ohu20a
▴ 10
0
votes
2
replies
113
views
How can I creating multisample VCF file ?
VCF
updated 11 hours ago by
Ram
38k • written 14 hours ago by
eennadi
▴ 20
0
votes
2
replies
2.2k
views
Differential quantification of splice junction
dexseq
RNA-Seq
updated 2 days ago by
Ram
38k • written 7.8 years ago by
Anil Kesarwani
▴ 90
0
votes
2
replies
275
views
cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
bcl2fastq
cellranger-arc
mkfastq
cellranger
5 days ago by
Yingying
• 0
0
votes
2
replies
2.5k
views
Which method is good for getting logFC for pairwise comparsion of replicates?
RNA-Seq
updated 2 days ago by
Ram
38k • written 7.8 years ago by
mike
▴ 90
0
votes
2
replies
157
views
FATAL: While performing build: build image size <= 0 - Issues With Singularity
R
Docker
Singularity
12 hours ago by
Indira
• 0
1
vote
2
replies
516
views
Presence absence matrix from blast results
blast
python
genome
biopython
updated 4 hours ago by
Ram
38k • written 15 months ago by
Tejas Mahesh Kale
▴ 10
0
votes
2
replies
143
views
Averaging across multiple proteomic experiments
statistics
proteomics
R
updated 11 hours ago by
ATpoint
69k • written 1 day ago by
bhumm
▴ 20
0
votes
2
replies
109
views
Miseq mothur error with SOP in galaxy - Help please!
mothur
miseq
16s
Galaxy
sop
updated 10 hours ago by
colindaven
4.4k • written 13 hours ago by
Melissa
• 0
2
votes
2
replies
153
views
difference between chip-seq and association study
association
chip-seq
TWAS
1 hour ago by
rheab1230
▴ 120
1
vote
2
replies
527
views
Portfolio project ideas for a starting bioinformatics software developer?
software-development
project
updated 5 hours ago by
Ram
38k • written 12 months ago by
d
• 0
0
votes
2
replies
174
views
Copy Number Variants, where to start?
CNV
annotation
11 hours ago by
paolo
▴ 60
0
votes
1
reply
2.4k
views
OpenSNP and SNP position information
OpenSNP
updated 5 days ago by
Ram
38k • written 7.8 years ago by
bfeeny
▴ 50
0
votes
1
reply
465
views
How to use stringtie without reference guide
stringtie
updated 4 hours ago by
Ram
38k • written 15 months ago by
LeeLee
▴ 10
0
votes
1
reply
393
views
sorting clusters from cd hit
cd-hit
updated 6 days ago by
Ram
38k • written 6 weeks ago by
Nabil
• 0
0
votes
1
reply
1.4k
views
issues in genotyping using TaqMan Assay
TaqMan
genotyping
updated 6 days ago by
Ram
38k • written 7.8 years ago by
jfjiang
▴ 10
2
votes
1
reply
7.5k
views
ROH by PLINK
plink
ROH
updated 10 hours ago by
Ram
38k • written 7.8 years ago by
afadda
▴ 20
0
votes
1
reply
147
views
gff2bed fails with "Non-numeric start coordinate. "
bedops
updated 1 day ago by
Jimmy
• 0 • written 2 days ago by
scottbrainard
▴ 50
0
votes
1
reply
50
views
NCBI search with ENTREZ biopython last refseq version tag
ncbi
biopython
updated 4 hours ago by
vkkodali_ncbi
★ 3.4k • written 5 hours ago by
marine.bergot
• 0
0
votes
1
reply
4.3k
views
Convert exonerate output to EVM gff3 format error
evidencemodeler
evm
gff3
exonerate
updated 5 days ago by
Ram
38k • written 7.8 years ago by
sun.nation
▴ 130
0
votes
1
reply
280
views
How to calculate 2.5% pvalues for the 2 ends of the distribution?
numpy
t-test
python
genomics
updated 6 days ago by
Ram
38k • written 7 weeks ago by
Virat_Baahubali
• 0
1
vote
1
reply
247
views
convert beagle genotypes to vcf
vcf
beagle
updated 1 day ago by
Andrea
▴ 10 • written 10 weeks ago by
bsp017
▴ 40
1
vote
1
reply
3.1k
views
Soft threshold in WGCNA
wgcna
updated 2 days ago by
Ram
38k • written 7.8 years ago by
madkitty
▴ 660
1
vote
1
reply
2.1k
views
Identifying Non Synonymous mutations in bacterial genomes
SNP
R
next-gen
genome
sequence
updated 1 day ago by
Ram
38k • written 7.8 years ago by
mmart12
▴ 30
0
votes
1
reply
2.2k
views
missing probeID in affymetrix using oligo package
affymetrix
updated 6 days ago by
Ram
38k • written 7.7 years ago by
benhrif.oussama
• 0
1
vote
1
reply
187
views
bwa mem duration?
performance
mapping
bwa
updated 5 days ago by
ATpoint
69k • written 5 days ago by
lacb
▴ 30
0
votes
1
reply
119
views
Dealing with variable sequencing depth.
BCFTools
downsampling
WGS
sequencing
GATK
7 hours ago by
a
• 0
231 results • Page
2 of 5
Recent Votes
A: FindConservedMarkers vs FindMarkers vs FindAllMarkers Seurat
Comment: difference between chip-seq and association study
C: Ballgown Error in file(file, "rt") : invalid 'description' argument
Subbmission Data
Finding Reference Sequences And Interpretation Of Data From Repeatmasker Ucsc Tables
A: Finding Reference Sequences And Interpretation Of Data From Repeatmasker Ucsc Ta
C: extract and generate a VCF file with only "PASS"
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paria.alipour
▴ 70
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O.rka
▴ 650
Teacher
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GenoMax
125k
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epaminonda
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Recent Replies
Answer: WGCNA TOM calculation time
by
tothepoint
▴ 720
I remeber I was working on highmem cluster and it took around a week to finish. Although, I consider Kevin suggestion and filtered the rea…
Answer: installation of bioclite gives an error
by
Kevin Blighe
84k
Hi, Installation via biocLite is no longer used. Please install packages via the *BiocManager* package, for example: BiocManager:…
Comment: difference between chip-seq and association study
by
rheab1230
▴ 120
okay, so in order to get a complete picture i can combine both of these methods?
Comment: Error with FindConservedMarkers()
by
Chris
▴ 60
Could other admins have a look?
Comment: What should I do if the gene IDs in my reference dataset and test dataset are di
by
paria.alipour
▴ 70
Here is the code that worked for me #read in the ref dataset reference <- readRDS("DR.rds") #convert ensemble id to gene symbol, I found …
Comment: WGCNA TOM calculation time
by
Michele
• 0
Hi tothepoint! I know it's been a long time, but I couldn't find an answer to this question and I'm now having the same question. So do you…
Answer: How to find the difference between old and current releases in UniprotKB
by
GenoMax
125k
> For specific entry id, what it has changed from previous releases to > current releases. If you are talking about a specific UniProt …
Comment: NCBI search with ENTREZ biopython last refseq version tag
by
vkkodali_ncbi
★ 3.4k
Try `latest_refseq` instead of `latest refseq`. Or, use quotes for it, like this: `'Microbacterium[Organism] AND "latest refseq"[Filter] NO…
Answer: PyMOL: Gaps in protein structure yet shown by the sequence
by
Mensur Dlakic
★ 22k
Dashing lines indicate that at least one residue is missing in the structure, possibly more. If you search for `REMARK 465` in the PDB f…
Answer: How to find the difference between old and current releases in UniprotKB
by
Mensur Dlakic
★ 22k
Not sure that you realize how many sequences are in UniProtKB. I don't think there is a way of doing this in a reasonable amount of time by…
Comment: How to determine the optimal number of clusters?
by
seidel
10k
Do you have a definition of optimal? Do you have a context in which something can be more optimal or less optimal? Can you provide any more…
Comment: Subbmission Data
by
seidel
10k
GEO allows you to keep your data private for up to three years, AND has a mechanism where you can share it with reviewers without it being …
Comment: PyMOL: Gaps in protein structure yet shown by the sequence
by
spence.lank
▴ 10
The PDB ID for this structure is 7DK3 and the literature is here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7775788/
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ATpoint
69k
You do not do what I suggested above.
Comment: Relative frequencies of the nucleotides in Fasta files
by
xiaoleiusc
▴ 110
Hi, Hugo, I acknowledged you in my paper recently published. Thanks for your help! Xiao PS, paper link https://elifesciences.org/articles/8…
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