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190 results • Page
1 of 4
Sort: Votes
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Votes
Replies
7
votes
4
replies
1.3k
views
microarray gene datasets
gene
updated 1 day ago by
Ram
37k • written 7.7 years ago by
bioinfo
▴ 60
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 1 day ago by
Ram
37k • written 7.7 years ago by
xiaofeng.dong12
▴ 20
6
votes
9
replies
336
views
Error when runing Bowtie2: (ERR): bowtie2-align exited with value 1
error
BAM
Bowtie
updated 3 days ago by
GenoMax
125k • written 8 days ago by
luzglongoria
▴ 40
5
votes
2
replies
2.2k
views
Cut & run - bowtie2 dovetail option
cut and run
dovetail
bowtie2
updated 4 days ago by
baijiangshan9726
• 0 • written 2.3 years ago by
blur
▴ 270
5
votes
14
replies
650
views
How to Calulate Allele Frequency from a VCF File?
frequency
allele
VCF
updated 3 days ago by
Jeremy Leipzig
21k • written 7 days ago by
Emoji
• 0
5
votes
7
replies
3.0k
views
STAR aligner pauses frequently during mapping
rna-seq
STAR
updated 3 days ago by
Ram
37k • written 7.7 years ago by
E Chen
• 0
4
votes
11
replies
2.5k
views
Please add an explicit type tag :NAME
software-error
next-gen
genome
updated 3 days ago by
Ram
37k • written 4.7 years ago by
mahdikhadem95
▴ 30
4
votes
2
replies
2.3k
views
Signal Distribution Charts
ChIP-Seq
next-gen
R
updated 3 days ago by
Ram
37k • written 7.7 years ago by
John
13k
4
votes
2
replies
184
views
Analyzing bulk RNA-seq
RNAseq
updated 1 day ago by
swbarnes2
13k • written 1 day ago by
Zaid
• 0
3
votes
4
replies
1.5k
views
getting reference genome accession number
RNA-Seq
updated 2 days ago by
Ram
37k • written 7.7 years ago by
fi1d18
★ 4.1k
3
votes
2
replies
1.5k
views
parsing the samtools view out put
RNA-Seq
updated 8 hours ago by
Ram
37k • written 7.7 years ago by
fi1d18
★ 4.1k
3
votes
0
replies
2.1k
views
Informations about UCSC bigWigCorrelate tools
bigwig
ucsc
updated 2 days ago by
Ram
37k • written 7.7 years ago by
jacquesserizay
▴ 30
3
votes
6
replies
202
views
Which file and data structure is used to create volcano plot from scRNA-Seq experiment?
plot
Volcano
7 hours ago by
Chris
▴ 60
3
votes
6
replies
2.0k
views
snpEff suitable for Bathycoccus prasinos?
protist
non-human
SNP
annotation
updated 4 days ago by
Ram
37k • written 7.8 years ago by
nathalie.joli
▴ 10
3
votes
2
replies
164
views
WGCNA gene selection: gene significance or LASSO?
LASSO
WGCNA
updated 1 day ago by
rpolicastro
11k • written 2 days ago by
janinubinu
• 0
2
votes
3
replies
462
views
samtools mpileup error - 1 samples in 1 input files
samtools
bioinformatics
SAM
BAM
mpileup
updated 1 day ago by
Pierre Lindenbaum
152k • written 13 months ago by
joseph.kelly.94
▴ 10
2
votes
1
reply
251
views
bgzip error 4
bgzip
error4
vcf
updated 6 days ago by
Pierre Lindenbaum
152k • written 7 days ago by
yb
▴ 10
2
votes
7
replies
6.6k
views
Bowtie2 run out of memory
software-error
alignment
bowtie2
updated 13 hours ago by
Ram
37k • written 7.7 years ago by
anon
▴ 50
2
votes
3
replies
746
views
Merging FASTQs from the same sample
Merging
FASTQ
cellranger
scRNAseq
10X
updated 5 days ago by
Angelina_G
• 0 • written 13 months ago by
adellegreene
• 0
2
votes
4
replies
272
views
Retrieve specific fasta sequences from a group of assemblies
CDS
gene
sequence
4 days ago by
SushiRoll
▴ 100
2
votes
0
replies
196
views
Should one concatenate two haplotype genome assemblies into one assembly?
PacBio
genome-assembly
whole-genome-sequence
Hi-C
updated 1 day ago by
Ram
37k • written 11 months ago by
anikcropscience
▴ 150
2
votes
12
replies
4.1k
views
Adding barcodes to forward and reverse reads after sequencing
obitools
barcoding
next-gen-sequencing
updated 12 hours ago by
Ram
37k • written 7.7 years ago by
cmogren
▴ 20
1
vote
3
replies
200
views
How to correctly use bedtools merge?
bedtools
updated 3 days ago by
Ram
37k • written 3 days ago by
Amisha
• 0
1
vote
1
reply
340
views
Getting a PhD in Bioinformatics only having a BSc in Data Science
software-development
project
updated 1 day ago by
Ram
37k • written 12 months ago by
d
• 0
1
vote
7
replies
2.6k
views
Fragmented ABySS assembly
Assembly
updated 2 days ago by
Ram
37k • written 7.7 years ago by
zgayk
▴ 90
1
vote
1
reply
189
views
How to calculate tumor mutation burden (TMB)?
TMB
Mutations
WES
Sequencing
Mutationrate
updated 6 days ago by
Fabio Marroni
★ 2.9k • written 24 days ago by
tanbiswas6
▴ 10
1
vote
2
replies
1.1k
views
Where to learn about getting a few thousand genomes sequenced?
budget
sequencing
updated 4 days ago by
Ram
37k • written 7.7 years ago by
Vincent Laufer
★ 2.5k
1
vote
3
replies
213
views
Variant effect predictor in ictalurus punctatus
VariantEffectPredictor
VEP
updated 4 days ago by
barslmn
★ 1.2k • written 5 days ago by
Hayler Edu
▴ 30
1
vote
4
replies
3.0k
views
unplaced, unlocalized, ... scaffolds from hg19 to GRCh38
Assembly
updated 2 days ago by
ED
• 0 • written 7.1 years ago by
tabone.olivier
▴ 10
1
vote
1
reply
272
views
How do I subset a dataframe based on several other dataframes using R?
R
affymetrix
updated 1 day ago by
Ram
37k • written 12 months ago by
melissachua90
▴ 40
1
vote
0
replies
2.0k
views
Definition of splicing eQTLs in RNA-Seq and arrays
genome
RNA-Seq
snp
updated 13 hours ago by
Ram
37k • written 7.7 years ago by
User 7754
▴ 250
1
vote
3
replies
264
views
Calculating PRS in a large cohort
PRS
2 days ago by
haasroni
• 0
1
vote
0
replies
1.8k
views
How to test saturation for codeml in paml?
next-gen
SNP
updated 2 days ago by
Ram
37k • written 7.7 years ago by
xiaofeng.dong12
▴ 20
1
vote
1
reply
76
views
bwa mem duration?
performance
mapping
bwa
updated 16 hours ago by
ATpoint
68k • written 16 hours ago by
lacb
▴ 30
1
vote
13
replies
342
views
RNAseq for DE purpose
RNAseq
updated 1 day ago by
swbarnes2
13k • written 1 day ago by
m.habib
• 0
1
vote
8
replies
339
views
Downloading NT chunks from NCBI and creating a BLAST database
nucleotide
blast
nt
blastn
database_update.pl
updated 4 days ago by
lennykovac
▴ 80 • written 9 days ago by
Vinícius
• 0
1
vote
1
reply
119
views
snakemake Unexpected keyword bam in rule definition
snakemake
updated 1 day ago by
Ram
37k • written 1 day ago by
Aidand
• 0
1
vote
1
reply
160
views
tools that align sequences in mouse and human
r
updated 3 days ago by
dthorbur
▴ 260 • written 3 days ago by
Chironex
▴ 40
1
vote
2
replies
212
views
Speciation of insecta using NGS technology
speciation
NGS
18S
insecta
3 days ago by
dante
• 0
1
vote
3
replies
213
views
Strand-specific in HT-Seq
HT-Seq
Strand-specific
3 days ago by
ibq.enriquepola
• 0
1
vote
6
replies
2.0k
views
Error using samtools for downloading bam files
bam
samtools
updated 1 day ago by
Ram
37k • written 7.7 years ago by
Maria333
▴ 20
1
vote
2
replies
190
views
How to install pandas
ml
python
offtopic
updated 4 days ago by
Ram
37k • written 5 days ago by
Sargun
• 0
1
vote
1
reply
173
views
Visualize variants and percentage of variants from one sample of Amplicon Seq data?
Amplicon
PCR
RNAseq
GATK
BWA
updated 1 day ago by
cmdcolin
★ 2.8k • written 3 days ago by
Saran
▴ 20
1
vote
0
replies
1.6k
views
Running PAML models on HyPhy
paml
site-models
hyphy
phylogenetics
updated 4 days ago by
Ram
37k • written 7.7 years ago by
DR
▴ 10
1
vote
6
replies
1.9k
views
How to increase the speed of miRanda target prediction program?
miranada
mirna
parallel
updated 4 days ago by
kuttibiotech2009
▴ 20 • written 5.2 years ago by
lakhujanivijay
5.7k
1
vote
1
reply
1.0k
views
How to interpret highly variable genes plot in Scanpy?
python
single-cell RNA Seq
updated 5 days ago by
mt_pereira
• 0 • written 23 months ago by
Pratik
▴ 870
1
vote
3
replies
298
views
MesKit error message - Join columns must be present in data.
MesKit
R
updated 3 days ago by
Ram
37k • written 5 days ago by
CH1374
▴ 10
0
votes
2
replies
158
views
Where can I get the ICB datasets in this website?
data
r
ICB
updated 3 days ago by
GenoMax
125k • written 3 days ago by
JACKY
▴ 70
0
votes
3
replies
176
views
Help interpreting FastQC report
fastQC
trimming
quality-control
updated 4 days ago by
GenoMax
125k • written 4 days ago by
sithlordashley
• 0
0
votes
0
replies
84
views
Interpreting SnpEff output plots
NGS
Annotation
SnpEff
WGS
WES
2 days ago by
Alireza
▴ 20
190 results • Page
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• 0
I'm now realizing it might be due to the filter parameter being set =1 when I run dba.count because when I set it to 0, all of the peaks ar…
Answer: Obtaining every"Protein ID" from a genome in OMA
by
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Hello, It seems that the current download is limited to 100 genes on the genomes pages, we will increase this limit to the extent of ea…
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Thank you very much, Matthias! I will definitely check those links out myself!
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7.5k
What tool did you look at ?
Comment: want the codes for Deseq2 to perform DEGs.
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Comment: cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
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Hi, Yes I've uploaded the diagnostic file to 10x support already, but haven't got any response yet.
Comment: cellranger-arc mkfastq Error: bcl2fastq was killed with signal -11
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125k
You may want to contact 10x tech support. When this process failed it must have created a diagnostic archive. You also get a message about …
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`bedtools intersect -v` is one option for identifying the unique genes from the older gene model. <https://bedtools.readthedocs.io/en/lates…
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@GenoMax Hope this helps...Thank you
Comment: DESeq2 results function runs very slow on Windows 10
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68k
Does it go away if you remove the `parallel` from `results()`? After all, it is the `DESeq()` function that is the bottleneck when n is lar…
Comment: HTSeq error processing GFF file
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ibq.enriquepola
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enrique@L:~/bioinformatica/index/prueba$ head -n 997531 GCF_902167145.1_Zm-B73-REFERENCE-NAM-5.0_genomic.gff|tail -n 1 NC_007982.1 Ref…
Comment: Which file and data structure is used to create volcano plot from scRNA-Seq expe
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Thank you for your help! I got an error that I could not find the solution on the Internet: library(EnhancedVolcano) Loading required…
Comment: HTSeq error processing GFF file
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I guess you can try to replace the "?" to a "." Also, you can copy and paste text instead of the screenshots?
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96k
Note the following: https://support.bioconductor.org/p/115415/ it looks like it has to do with the Parallel=TRUE flag
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125k
> there is a massive difference in performance between them. It still is taking only one minute.
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