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122,200 results • Page
624 of 2444
Sort: Rank
Rank
Views
Votes
Replies
0
votes
4
replies
1.8k
views
Lexogen Quantseq Mapping Rates with Salmon
Quantseq
RNAseq
Salmon
Lexogen
Mapping
4.3 years ago by
abnerapsley
• 0
0
votes
0
replies
660
views
Increase in discordant alignments with Bowtie2 after changing trimming stringency?
cutadapt
trimgalore
ATAC-seq
stringency
bowtie2
4.4 years ago by
uli
• 0
1
vote
2
replies
2.0k
views
small RNA-Seq analysis and doubts
nc
RNA-Seq
small
miRNA-Seq
4.4 years ago by
Sergio
• 0
2
votes
2
replies
1.4k
views
merging paired ends illumina reads without quality with Pear
pear
merging
illuminareads
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
Lapsus
• 0
0
votes
1
reply
808
views
How to get all the metabolic pathways present within a bacteria species?
database
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
dpc
▴ 250
0
votes
0
replies
808
views
News:
Online training - Introduction to Deep Learning in biology
DeepLearning
4.4 years ago by
Physalia-courses
★ 2.7k
5
votes
2
replies
7.7k
views
TPM to log2(TPM+1)
log
TCGA
KIRC
RNA-seq
TPM
4.4 years ago by
David
▴ 30
1
vote
1
reply
1.7k
views
Downloading the RefSeq proteins complete data set
ftp
refseq
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
Dunois
★ 2.9k
2
votes
2
replies
2.5k
views
How to write the rule for Indexing with bowtie2-build and Expand function in snakemake ?
bowtie2
snakemake
indexing
updated 4.4 years ago by
ATpoint
90k • written 4.5 years ago by
Ahmed
• 0
0
votes
0
replies
573
views
Autodock4
Autodock4
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
Archita.khaire
• 0
0
votes
6
replies
2.1k
views
tool to identify genomic structural variations in completely sequenced prokaryotic genomes
prokaryotes
genomic
variations
mugsy
structural
updated 4.4 years ago by
samuel.a.odonnell
▴ 640 • written 4.4 years ago by
anwesha.mohapatra11
• 0
0
votes
2
replies
2.3k
views
Imputation of X chromosome non-PAR for male subjects
SNP
imputation
X chromsoome
4.3 years ago by
Apprentice
▴ 190
0
votes
1
reply
1.1k
views
defining input files for SeqIO
SeqIO
python
updated 4.4 years ago by
massa.kassa.sc3na
▴ 650 • written 4.4 years ago by
CHemsley001
• 0
3
votes
1
reply
849
views
Annotating an assembly according to alignment against a reference genome
genbank
annotation
alignment
updated 4.4 years ago by
Mensur Dlakic
★ 30k • written 4.4 years ago by
langziv
▴ 70
0
votes
1
reply
892
views
Degenerate Primer Sequence Recovery
python
degenerate-primers
updated 2.4 years ago by
Ram
45k • written 4.4 years ago by
james.nolan.2
• 0
0
votes
1
reply
3.7k
views
BL21 vs BL21 Star
E.coli
BL21
updated 2.7 years ago by
Ram
45k • written 4.4 years ago by
A_heath
▴ 180
0
votes
0
replies
817
views
snpeff effect prediction confusion
variant
hgvs
snpeff
annotation
4.4 years ago by
najoshi
▴ 30
0
votes
2
replies
1.0k
views
Chip seq data related query
values
Chip
data
narrowPeak
intensity
4.4 years ago by
sujasubramanian
▴ 70
0
votes
4
replies
2.0k
views
Issues with genome indexing with bowtie2-build
bowtie2
index
updated 4.4 years ago by
Sej Modha
5.3k • written 4.4 years ago by
Elisa
• 0
9
votes
13
replies
6.0k
views
error when running bbduk
bbduk
updated 17 months ago by
Ram
45k • written 4.4 years ago by
Lila M
★ 1.3k
9
votes
6
replies
4.1k
views
Trouble running snakemake while defining maximum RAM usage
snakemake
updated 4.4 years ago by
dariober
15k • written 4.4 years ago by
cfos4698
★ 1.2k
0
votes
0
replies
683
views
KEGG pathway analysis of miRNA in rice(oryza sativa)
target
kegg
pathway
miRNA
prediction
4.4 years ago by
Aswini
• 0
1
vote
3
replies
1.6k
views
CURL UniprotIDs not working consistently
curl
uniprot
python
bash
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
nimojose
• 0
0
votes
0
replies
670
views
How to divide reads mapping to two different genes using featureCounts
featureCounts
mapping
alignment
rna-seq
4.4 years ago by
Apex92
▴ 320
12
votes
10
replies
2.5k
views
Ensure identical output between platforms and operating systems
reproducibility
updated 4.4 years ago by
Alex Reynolds
36k • written 4.4 years ago by
ATpoint
90k
9
votes
9
replies
11k
views
I couldn't install DEseq2?
R
rna-seq
gene
updated 4.4 years ago by
ATpoint
90k • written 6.6 years ago by
enginbozaba
▴ 20
3
votes
2
replies
1.2k
views
Help needed in retrieving data from Candida genome database
candida
R
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
Trinh
▴ 10
1
vote
2
replies
1.1k
views
Source incompatible with Sink
CWL
4.4 years ago by
Levi
▴ 10
1
vote
2
replies
1.5k
views
pyscenic
pyscenic
4.4 years ago by
Wakala
• 0
7
votes
2
replies
7.2k
views
Trinity : How To Co-Assemble Different Samples (Tumor And Healthy)
trinity
assembly
transcriptome
updated 4.4 years ago by
CephBirk
▴ 20 • written 13.8 years ago by
Nicolas Rosewick
11k
2
votes
5
replies
6.9k
views
Adding Introns To Gff3 Format?
coordinates
gff3
conversion
updated 4.4 years ago by
Ram
45k • written 12.8 years ago by
user
▴ 960
3
votes
4
replies
2.3k
views
sugestion nanopore assembly and illumina reads
nanopore
assembly
illumina
updated 4.4 years ago by
predeus
★ 2.1k • written 4.4 years ago by
zion22
▴ 70
4
votes
8
replies
2.7k
views
Aligning two fasta files with multiple sequences
Protein
Fasta
Sequence
Alignment
4.4 years ago by
Ammar Danazumi
▴ 10
0
votes
2
replies
738
views
Clustering based on sequence similarity
relativenessbasedclustering
updated 4.4 years ago by
Mensur Dlakic
★ 30k • written 4.4 years ago by
Мики-рики-тави
• 0
1
vote
7
replies
4.3k
views
Error when running hhblits: Cannot allocate memory/Could not read index file...
software error
hhsuite
hhblits
updated 4.4 years ago by
Dunois
★ 2.9k • written 5.9 years ago by
nkuhuangyan
• 0
0
votes
0
replies
863
views
SKAT-O R Error
SKAT
R
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
maya.ramachan
• 0
4
votes
5
replies
1.4k
views
Efficient ways to retrieve all sequences associated with a disease?
Sequences
data-mining
monogenetic-disorders
updated 4.4 years ago by
Ram
45k • written 4.4 years ago by
merzanaeem007
▴ 10
3
votes
10
replies
3.9k
views
VEP is returning ClinVar fileds bank (-- custom annotation with VEP)
ClinVar
VEP
annotation
updated 4.4 years ago by
Emily
24k • written 4.4 years ago by
saadatagah.m
• 0
0
votes
2
replies
2.2k
views
Integrate CITESeq reads to Seurat object
scRNAseq
CITEseqCount
Seurat
CITEseq
updated 4.4 years ago by
lianov
▴ 20 • written 4.4 years ago by
Vinothkumar
• 0
6
votes
2
replies
10.0k
views
Tools to generate spliced/unspliced counts
velocyto
single-cell
splicing
RNA-seq
scvelo
4.4 years ago by
PianoEntropy
▴ 70
2
votes
3
replies
1.4k
views
shell command to the following question
linux
offtopic
updated 4.4 years ago by
Dunois
★ 2.9k • written 4.4 years ago by
bioinformatics.queries
▴ 70
3
votes
1
reply
3.6k
views
Normalization and Batch Effect of bulk RNA-Seq
batch
RNA-Seq
correction
normalization
updated 4.4 years ago by
swbarnes2
15k • written 4.4 years ago by
hkarakurt
▴ 200
2
votes
2
replies
1.7k
views
Genome aligner that shows annotations too
alignment
genome
annotations
4.4 years ago by
danvoronov
▴ 30
1
vote
3
replies
2.2k
views
Species level taxID
blast
taxIDs
edirect
ncbi
updated 4.4 years ago by
GenoMax
154k • written 4.4 years ago by
danvoronov
▴ 30
1
vote
2
replies
1.5k
views
Samtools pileup extract read length for position
SNP
pileup
samtools
bam
updated 4.4 years ago by
swbarnes2
15k • written 4.4 years ago by
rah
▴ 30
2
votes
4
replies
1.8k
views
[SOLVED] GSEA - Strange Results interpretation - Error in DESEQ2 ?
gsea
deseq2
clusterprofiler
4.4 years ago by
Evan
▴ 250
0
votes
0
replies
860
views
Change axis of ProDy plot
python
python3
ProDy
matplotlib
4.4 years ago by
Kevin
▴ 70
1
vote
5
replies
2.4k
views
Unusual FastQC Per Base Sequence Content
FastQC
Illumina
updated 4.4 years ago by
jared.andrews07
★ 19k • written 4.4 years ago by
RBright21
▴ 10
20
votes
12
replies
42k
views
7 follow
Forum:
When To Use Sed Awk Over Perl Or Python
perl
python
awk
updated 2.7 years ago by
Ram
45k • written 11.9 years ago by
Medhat
9.8k
3
votes
4
replies
1.8k
views
how to detect non CpG methylation probes ?
DNAmethylation
methylation
infinium450k
microarray
minfi
R
4.4 years ago by
takoyaki
▴ 120
122,200 results • Page
624 of 2444
Recent Votes
Answer: best practice for diploid variant calling
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Comment: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Can i use orthofinder for small protein datasets and not full proteome?
Answer: Midpoint rooting IQTREE newick file moves node support around
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Recent Replies
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
• 0
thanks for the quick reply. i posted the screenshot. gatk-internally, there is still the difference using -ERC or not, priot is getting …
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
• 0
here the igv view. showing the histogram for all samples plus the reads for one: ![enter image description here][1] and expanded view of …
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
Check the read lengths to make sure the files are correct.
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
Pierre Lindenbaum
166k
> Any suggestions or help you could share please, show us an IGV screenshot of the position GATK realign the reads locally, discards read…
Comment: Can i use orthofinder for small protein datasets and not full proteome?
by
alexandrakortsi
• 0
By sequence. Thank you for your response!
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding
by
xinguok794
▴ 10
Thank you for your reply! Unfortunately, despite running YAHS with `--no-contig-ec`, the QV value of the resulting FASTA file did not impro…
Comment: Subsetting before QC in Spatial Transcriptomics
by
Kent
▴ 30
Hi Kevin, Thanks for the detailed explanation. Due to the characteristics of the datasets, we initially used very lenient quality control…
Comment: Midpoint rooting IQTREE newick file moves node support around
by
Luca Arbore
▴ 10
Thank you very much Kevin, it worked!
Comment: ID unifiying across different datasets
by
GenoMax
154k
In this case the entry notes that this is likely the product of a pseudogene: https://www.uniprot.org/uniprotkb/Q5VTE0/entry and existence …
Comment: Comparison of different RNAseq data sets
by
DrSmad
▴ 10
Each lab contributes both control and LPS. Example, for cell line A_lab1 did and analysis on control and LPS-6h. Cell line B_lab2 did contr…
Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
sorry, why some gene names are often lacking though the Uniprot ID is still valid (using biomart)?
Comment: snpEff: Unsupported structural variant types
by
shpak.max
▴ 70
Unfortunately, while it ran without a problem initially, when I checked the run screen today, I saw the following error message (and unlike…
Comment: ID unifiying across different datasets
by
GenoMax
154k
You can use the [**ID mapping tool**][1] from UniProt site (third ID did not map from the list above): From To P68104 ENSG0000015…
Answer: The geo samples is not having sentrix id and sentrix position. But this informat
by
yura.grabovska
▴ 890
Crosspost from related question: https://www.biostars.org/p/9616466/#9616534 ``` ##Using R, illuminaio from Bioconductor library(…
Answer: Finding Sentrix ID in HM450K arrays
by
yura.grabovska
▴ 890
``` ##Using R, illuminaio from Bioconductor library(illuminaio) temp.idat <- readIDAT(file = "200379120087_R02C02_Grn.idat") tem…
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