Latest
Open
Jobs
Tutorials
Tags
About
FAQ
Community
Planet
New Post
Log In
New Post
Latest
Open
News
Jobs
Tutorials
Forum
Tags
Planet
Users
Log In
Sign Up
About
Limit : all time
all time
today
this week
this month
this year
122,201 results • Page
665 of 2445
Sort: Rank
Rank
Views
Votes
Replies
2
votes
4
replies
2.9k
views
20,000 Ensembl gene IDs with external gene name in hg19 but not in hg38
ensembl
biomart
4.6 years ago by
loughrae
▴ 90
0
votes
0
replies
682
views
Determining RNAseq background noise
rna-seq
RNAseq
RNA-seq
rnaseq
RNA-SEQ
4.6 years ago by
marcos.georgiades.18
▴ 10
4
votes
8
replies
2.7k
views
Low no_Feature value after using STAR for alignment
RNA-seq
alignment
STAR
4.5 years ago by
yanyanwu
▴ 20
1
vote
3
replies
2.1k
views
ATACseq batch effect coupled with biological effect
batch-effect
ATAC-seq
updated 2.5 years ago by
Ram
45k • written 4.6 years ago by
pt.taklifi
▴ 70
0
votes
0
replies
1.2k
views
setReadable error in ClusterProfiler
error
setReadable
clusterProfiler
4.6 years ago by
WF
• 0
0
votes
0
replies
707
views
Repeats that affects NIPT results
NIPT
NGS
4.6 years ago by
khanhlpbao
• 0
0
votes
0
replies
889
views
GATK4 MappingQualityReadFilter
GATK4
MappingQualityReadFilter
Mutect2
4.6 years ago by
jhy
▴ 10
2
votes
2
replies
1.6k
views
Tool to run statistics on a list of genes and output associated conditions/phenotypes that intersect the most?
phenotypes
genes
updated 4.6 years ago by
boaty
▴ 220 • written 4.6 years ago by
cool_panda
▴ 10
3
votes
0
replies
877
views
Looking for a tool for metadata management
management
relational
metadata
database
4.6 years ago by
boaty
▴ 220
4
votes
4
replies
3.1k
views
Filtering out non-bacterial genomes from metagenomic data
metagenomic
bacteria
updated 4.6 years ago by
boaty
▴ 220 • written 4.6 years ago by
reecemccu
• 0
0
votes
0
replies
1.1k
views
Job:
Computer Systems Supervisor
LBL
IT
EMSL
NERSC
4.6 years ago by
BerkeleyLab
▴ 70
0
votes
6
replies
3.5k
views
Deeptools: computeMatrix can't read file
deeptools
updated 4.0 years ago by
GenoMax
154k • written 4.6 years ago by
yomogy
▴ 120
1
vote
5
replies
4.7k
views
Problems with installing adegenet
R
error
software
adegenet
gene
4.6 years ago by
poecile.pal
▴ 50
0
votes
0
replies
1.5k
views
How to parse Hyphy JSON output into treedata?
JSON
Datamonkey
R-studio
treeio
PAML
4.6 years ago by
Shola
• 0
1
vote
0
replies
1.2k
views
Job:
Positions at Molecular Diagnostics Labs, UCLA Health
variant
clinical
scientist
curator
molecular
4.1 years ago by
Cyriac Kandoth
6.1k
0
votes
0
replies
1.6k
views
Job:
Exciting Bioinformatics Engineer position at Stanford University
proteomics
multiomics
metabolomics
updated 2.5 years ago by
Ram
45k • written 4.6 years ago by
biodavidjm
• 0
4
votes
2
replies
1.1k
views
Reads extraction from a .bam file
samtools
4.6 years ago by
kaleb.gatto
▴ 10
4
votes
5
replies
1.9k
views
How to calculate combined expression of two genes
R
rna-seq
updated 4.6 years ago by
Kevin Blighe
★ 90k • written 4.6 years ago by
williamsbrian5064
▴ 540
0
votes
0
replies
878
views
phyloP conservation score for Saccharomyces cerevisiae S288C (baker's yeast) genome assembly R64 (sacCer3)
phylop
conservation
yeast
saccer3
4.6 years ago by
sanjitsbatra
• 0
13
votes
6
replies
24k
views
Trimming TruSeq Universal Adapter (Trimmomatic)
fastq
trimming
RNA-Seq
Trimmomatic
updated 4.6 years ago by
Nanderson-coder
• 0 • written 8.9 years ago by
ZheFrench
▴ 590
2
votes
4
replies
2.1k
views
Converting samtools view <region> output (multiple reads) into single fasta sequence (consensus?)
coordinate
dna
samtools
view
consensus
4.6 years ago by
a1ultima
▴ 890
0
votes
2
replies
1.1k
views
Statistical test for QQ-plot comparison of GWAS summary statistics
qqplot
GWAS
p-values
4.6 years ago by
f-rasmussen
▴ 10
57
votes
15
replies
137k
views
11 follow
Tutorial:
Using R in Conda
R
updated 16 months ago by
henry-keen
▴ 50 • written 5.4 years ago by
rohitsatyam102
▴ 940
0
votes
0
replies
963
views
SvSeq2 for CNVs insertions
WGS
Analysis
CNV
4.6 years ago by
ICfc97
▴ 20
3
votes
3
replies
1.4k
views
Check a bam file if it was hard clipped?
Hardclipping
BAM
IGV
updated 4.6 years ago by
GenoMax
154k • written 4.6 years ago by
R.T. Canterbury
▴ 10
0
votes
0
replies
842
views
about the batch correction and integration and normalization of scRNA-seq data
normalization
scRNA-seq
4.6 years ago by
Bogdan
★ 1.4k
0
votes
1
reply
1.1k
views
Genomic Ranges of data from a chromosome
chromosome
DNA
GenomicRanges
updated 4.6 years ago by
benformatics
4.2k • written 4.6 years ago by
alorsonmethyle
▴ 50
4
votes
9
replies
13k
views
question about macs2 --broad-cutoff
ChIP-Seq
MACS2
macs2
broadpeak
broad-cutoff
4.6 years ago by
Yu
▴ 140
0
votes
1
reply
1.0k
views
Quantification of a gene that has copies in multiple chromosomes using featureCounts
gene
RNAseq
featureCounts
updated 4.6 years ago by
Zhilong Jia
★ 2.2k • written 4.6 years ago by
krishnapashu912
▴ 40
2
votes
1
reply
1.2k
views
cell type grouping
celltypes
singlecell
updated 4.6 years ago by
Zhilong Jia
★ 2.2k • written 4.6 years ago by
ramyak1912
• 0
0
votes
1
reply
1.4k
views
SCRAN-normalization
scRNA
Normalization
updated 4.6 years ago by
ATpoint
90k • written 4.6 years ago by
Filago
▴ 110
2
votes
8
replies
2.3k
views
Parsing Dates from Multiple Websites
R
updated 4.6 years ago by
cpad0112
21k • written 4.6 years ago by
rohitsatyam102
▴ 940
0
votes
3
replies
1.1k
views
Functional annotation
Annotation
updated 4.6 years ago by
lieven.sterck
16k • written 4.6 years ago by
Vedikaa Dhiman
• 0
1
vote
3
replies
2.1k
views
Stringtie2 no reference transcript found
alignment
rna-seq
nanopore
stringtie
samtools
updated 4.6 years ago by
GenoMax
154k • written 4.6 years ago by
sonsunjirachote
• 0
6
votes
3
replies
2.5k
views
SNP names Biomart error: Invalid filters(s): snp_filter
R
biomaRt
rsid
snpname
4.6 years ago by
PKW
▴ 110
29
votes
14
replies
34k
views
10 follow
Number Of Reads In A Sam File Which Are Assigned To Each Chromosome?
alignment
sam
updated 3.0 years ago by
Ram
45k • written 14.0 years ago by
KCC
★ 4.1k
2
votes
9
replies
4.1k
views
No SINEs, LINEs, LTR and DNA elements detected by RepeatMasker
repeatmasking
RepeatMasker
repeat
4.3 years ago by
Shri hari
▴ 40
0
votes
0
replies
617
views
Normalization of Microarray data for machine learning classification
machinelearning
normalization
microarray
4.6 years ago by
josyulabiotech
• 0
4
votes
4
replies
2.2k
views
Files recognized as gzip but not compressed
Linux
gzip
BAM
Ubuntu
4.6 years ago by
beaferbl
▴ 10
0
votes
0
replies
664
views
SNP analysis on abi file
abi
snp
updated 2.7 years ago by
Ram
45k • written 4.6 years ago by
matrix
• 0
0
votes
1
reply
635
views
Miropeats
miropeats
updated 4.6 years ago by
ATpoint
90k • written 4.6 years ago by
Diana
• 0
2
votes
3
replies
1.4k
views
Is linked-read sequencing still a thing for genome assembly?
Sequencing
Linked-reads
updated 4.6 years ago by
GenoMax
154k • written 4.6 years ago by
mayankmurali12
• 0
3
votes
2
replies
1.1k
views
Protein partners and interactions
Protein
database
partners
molecular
interaction
updated 4.6 years ago by
GenoMax
154k • written 4.6 years ago by
DKA
▴ 40
3
votes
9
replies
4.0k
views
if you annotate a vcf with snpeff, how do you know if the annotation are referring to the alternate or reference allele?
annotation
snpsift
snpeff
vep
updated 4.6 years ago by
Emily
24k • written 4.6 years ago by
boxate1618
▴ 60
2
votes
3
replies
1.9k
views
is it normal to have zero mitochondria genes counts in my 10X data which is from Cellranger 5.0 count?
10X
scRNAseq
updated 4.6 years ago by
rpolicastro
13k • written 4.6 years ago by
FantasticAI
▴ 60
0
votes
5
replies
2.1k
views
Extract reads counts with featureCounts
RNAseq
BAM
subread
featureCounts
updated 4.6 years ago by
GenoMax
154k • written 4.6 years ago by
vivek
• 0
1
vote
8
replies
5.2k
views
Haploview formats
Haplotype
Analysis
updated 4.5 years ago by
Kevin Blighe
★ 90k • written 4.6 years ago by
abdin-marwa
▴ 10
1
vote
4
replies
2.7k
views
ShapeIT check problematic SNPs
genotypes
imputev2
shapeit
problematic
4.6 years ago by
SHN
▴ 40
0
votes
0
replies
658
views
Tool to find long gapped k-mers (k ~ 1000)
k-mers
gapped
motif
4.6 years ago by
giova34
▴ 10
1
vote
1
reply
691
views
RMSD clustering
Clustering
updated 4.6 years ago by
Mensur Dlakic
★ 30k • written 4.6 years ago by
Lilian
• 0
122,201 results • Page
665 of 2445
Recent Votes
strong appearing variant not found by haplotypecaller in -ERC mode and deepvariant but with haplotypecaller in normal mode
Answer: How can I easily remove overlapping transcripts, keeping only longest transcript
Answer: Log2 transformation is well used, but is there a good paper that can be used as
Answer: Flatten a GTF
Answer: RNA-seq - Creating SAF from NCBI gff for Subread featureCounts - keep 'gene' or
Can EdgeR of DeSeq be used for Single-cell RNA-seq?
Answer: Getting the overlap between two GTF files
Recent Locations •
All
United States,
1 minute ago
United States,
5 minutes ago
Ghent & Brussels, Belgium,
9 minutes ago
Norway,
13 minutes ago
UCLA,
17 minutes ago
Stony Brook University, NY,
22 minutes ago
London, United Kingdom,
23 minutes ago
Recent Awards •
All
Popular Question
to
ecSeq Bioinformatics
▴ 20
Popular Question
to
QX
▴ 80
Popular Question
to
Lila M
★ 1.3k
Teacher
to
dthorbur
★ 3.2k
Popular Question
to
colindaven
8.1k
Teacher
to
ATpoint
90k
Popular Question
to
san96
▴ 190
Recent Replies
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Arup Ghosh
3.5k
The barcode files with 24nt read length W71_LUNGrep2_S6_L001_R3_001.fastq.gz and W71_LUNGrep2_S6_L002_R3_001.fastq.gz should be the R2.
Comment: ID unifiying across different datasets
by
GenoMax
154k
Each database has their own method of annotation/validation. Depending on resources available there may be a lag between the databases in t…
Comment: low quality data or file name swapping -- cellranger arc errors when processing
by
Wu-Sheng Zhang
• 0
Hi @arup , thank you very much for your suggestions, and here are the results -- they seems correct. May I have your suggestions? Thank you…
Comment: Why did the QV value decrease significantly after using YAHS for HiC scaffolding
by
samuel.a.odonnell
▴ 640
I don't believe merqury ignores softmasked (lower case) nucleotides so I don't think that is the case. From what it sounds like, during th…
Comment: ID unifiying across different datasets
by
zizigolu
★ 4.4k
Thanks a lot to be helpful I’m trying to build a complete `UniProtID` to `GeneSymbol` lookup table and I’m running into a wall. I’ve alrea…
Comment: strong appearing variant not found by haplotypecaller in -ERC mode and deepvaria
by
thomas.heigl.ibk
▴ 20
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
▴ 20
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…
Traffic: 3957 users visited in the last hour
Content
Search
Users
Tags
Badges
Help
About
FAQ
Access
RSS
API
Stats
Use of this site constitutes acceptance of our
User Agreement and Privacy Policy
.
Powered by the
version 2.3.6