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122,034 results • Page
578 of 2441
Sort: Rank
Rank
Views
Votes
Replies
3
votes
4
replies
1.7k
views
Error during prefetch
Prefetch
SRR
SraToolkit
NCBI
updated 2.4 years ago by
Ram
45k • written 4.1 years ago by
Princy
▴ 60
4
votes
6
replies
2.6k
views
Whole genome sequencing and RNA sequencing data analysis for a bacterial strain
RNA-Seq
Gene
Whole
genome
sequencing
4.1 years ago by
salmon
▴ 10
1
vote
3
replies
1.7k
views
differences between Illumina Platinum Variant Calls and NIST variant calls
SNP
vcf
updated 4.1 years ago by
goldberry88
• 0 • written 6.2 years ago by
kspata
▴ 90
0
votes
3
replies
2.3k
views
Liftover nonmodel VCF
chain file
liftover
satsuma
ucsc
updated 4.1 years ago by
Philipp Bayer
8.9k • written 5.2 years ago by
raf.marcondes
▴ 110
1
vote
4
replies
2.4k
views
Agilent Sure Select .bed file v6 and v8
Agilent
bed
SureSelect
updated 2.6 years ago by
Ram
45k • written 4.1 years ago by
Vaishnavi
• 0
3
votes
3
replies
2.8k
views
How to map SILVA taxa names to NCBI IDs (in R)?
mapping
SILVA
NCBI
R
updated 4.1 years ago by
GenoMax
154k • written 4.1 years ago by
Art_SG
▴ 30
1
vote
4
replies
1.4k
views
missing genotype ./. even with many reads under AD and DP
genotype
vcf
4.1 years ago by
niyomiw88
• 0
2
votes
2
replies
1.4k
views
mixing hg38 and GRCh38 during variant calling
somatic
GATK
WES
NGS
4.1 years ago by
yaro
▴ 10
0
votes
1
reply
2.3k
views
Annovar: Mouse database download
annovar
mouse
database
ucsc
aj strain
updated 4.1 years ago by
Luis Nassar
▴ 670 • written 5.3 years ago by
v.chimankar
• 0
4
votes
3
replies
1.8k
views
UCSC MySQL access
UCSC
MySQL
updated 4.1 years ago by
Luis Nassar
▴ 670 • written 4.8 years ago by
noodle
▴ 650
3
votes
3
replies
1.7k
views
SNP exon region UCSC
ucsc
SNP
exon
updated 4.1 years ago by
Luis Nassar
▴ 670 • written 4.7 years ago by
Kian
▴ 50
0
votes
6
replies
2.1k
views
What to do if the Entrez id that I have had been updated with a new one and now is associated with a gene
featurecount
entrezid
galaxy
genename
4.1 years ago by
kizzy
▴ 10
0
votes
1
reply
705
views
Extracting data from a scanned image
reports
Scanning
historical
4.1 years ago by
Jng
• 0
1
vote
1
reply
1.6k
views
UCSC Gene Table Exon Frames Generating Stop Codons
orf
ucsc
genome
frame
updated 4.1 years ago by
Luis Nassar
▴ 670 • written 4.7 years ago by
andrewjiajia
▴ 10
3
votes
5
replies
1.6k
views
hlk hiloh hioh
genome
putty
4.1 years ago by
pollyyhjo
▴ 10
0
votes
3
replies
2.4k
views
Difficulty installing Bioperl for use with GUIDANCE
Guidance2
msa
phylogenetics
updated 4.1 years ago by
Arup Ghosh
3.4k • written 4.4 years ago by
alicecol
▴ 20
0
votes
2
replies
1.0k
views
BLAST: format specifier associated to "description"
blast
4.1 years ago by
Mgs3
▴ 30
3
votes
6
replies
12k
views
[main_samview] fail to read the header from "-".
HLA-LA
samtools
updated 4.1 years ago by
GenoMax
154k • written 4.1 years ago by
J
▴ 30
1
vote
2
replies
1.1k
views
microarray dataset input into metascape
microarray
metascape
4.1 years ago by
fionajcunningham
• 0
1
vote
2
replies
1.4k
views
Sum values in a row and compare the results to a value with awk or sed
awk
kraken
sed
4.1 years ago by
M
• 0
2
votes
3
replies
1.6k
views
I downloaded fastq files from a repository and tried to run fastqc, how can the average sequence length be only 8 bp?
scRNA-seq
fastqc
fastq
updated 4.1 years ago by
GenoMax
154k • written 4.1 years ago by
lapower
• 0
0
votes
4
replies
1.3k
views
Genome Sequencing - what is the 'identifier'?
coding
sequence
identifier
updated 4.1 years ago by
GenoMax
154k • written 4.1 years ago by
pollyyhjo
▴ 10
4
votes
3
replies
1.6k
views
PRS from a dataset on which the GWAS is based on
PRSice
Catalog
PGS
PRS
updated 4.1 years ago by
Sam
★ 4.8k • written 4.1 years ago by
Jenish
▴ 20
0
votes
0
replies
963
views
Pymolrc settings help in pymol
pymol
pymolrc
4.1 years ago by
mstar
• 0
0
votes
1
reply
991
views
ClustalO with multithreading parameter threads appear sleeping
clustalo
multithreading
updated 4.1 years ago by
GenoMax
154k • written 4.1 years ago by
nilaylale88
• 0
0
votes
0
replies
728
views
Novel Splice Variant Discovery from RNAseq Data
Variants
Splice
Computational
RNAseq
4.1 years ago by
saipra003
▴ 20
11
votes
10
replies
3.0k
views
Searching for mRNA ending with a specific 3' pattern in NON-poly-A RNASeq data.
rnaseq
poly-a
4.1 years ago by
Pierre Lindenbaum
166k
4
votes
8
replies
3.1k
views
Forum:
Troubleshooting Tips - bcl2fastq creates duplicate reads
bcl2fastq
duplicates
readgroup
demultiplex
4.1 years ago by
DavidStreid
▴ 110
3
votes
5
replies
1.7k
views
How to download protein sequences
plant
fasta
AQP
4.1 years ago by
Nelo
▴ 20
5
votes
6
replies
2.4k
views
Align fastq SOLiD data
fastq
aligner
solid
4.1 years ago by
Vic
▴ 140
0
votes
2
replies
1.1k
views
Regarding Error query in publically available RNA seq analysis by R studio
GEO
Rstudio
RNA-seq
NGS
updated 22 months ago by
Ram
45k • written 4.1 years ago by
ruddhida
• 0
6
votes
4
replies
11k
views
Can't locate Bio/SeqIO.pm - path error?
bioperl
updated 2.2 years ago by
schlogl
▴ 180 • written 4.1 years ago by
blur
▴ 280
4
votes
3
replies
6.9k
views
What is the correct syntax for BioPythons SeqIO.parse()
assembly
biopython
updated 4.1 years ago by
Philipp Bayer
8.9k • written 4.1 years ago by
robert.murphy
▴ 110
0
votes
0
replies
710
views
What do the values of max-allele frequency and min-allele frequency mean in the GATK GetPileupSumaries tool? (CalculateContamination)
getpileupsummaries
calculatecontamination
cross-contamination
gatk
4.1 years ago by
daniparada97
• 0
11
votes
11
replies
10.0k
views
7 follow
snpEFF not able to download GRCH38 ?
genome
Annotation
3.9 years ago by
pinn
▴ 210
1
vote
5
replies
2.9k
views
Kmergenie module readfq not found
readfq
kmergenie
updated 2.4 years ago by
Ram
45k • written 4.1 years ago by
A
▴ 10
0
votes
0
replies
667
views
Functional Classification of Transcription Factor
factor
database
transcription
4.1 years ago by
axolotl
• 0
4
votes
6
replies
4.6k
views
How to output MDS plot for RNAseq samples with ggplot2?
RNAseq
MDSplot
ggplot2
R
updated 4.1 years ago by
ATpoint
89k • written 4.1 years ago by
Riku
▴ 80
1
vote
0
replies
1.0k
views
Job:
ELIXIR Technical Officer (bioinformatician/data scientist) at EMBL-EBI
standards
EMBL-EBI
data
bioinformatician
4.1 years ago by
Erin Haskell
▴ 470
0
votes
3
replies
1.6k
views
ChIP-seq peak number so high
chipsamples
peaknumber
chipseq
chipseqpeaks
chipseqanalysis
4.1 years ago by
buffealo
▴ 130
0
votes
0
replies
1.7k
views
Job:
Two PhD scholarships in Transporter Protein Engineering at DTU Biosustain
Yeast
Engineering
biology
molecular
Metabolic
omic
4.1 years ago by
info
▴ 80
0
votes
1
reply
841
views
Preprocessing exome sequence
Analysis
workflow-Germline
GATK
Variant
updated 4.1 years ago by
ATpoint
89k • written 4.1 years ago by
priya.bmg
▴ 70
0
votes
0
replies
964
views
News:
Online Workshop - Bioinformatics Pipeline Development with Nextflow (November 22-25, 2021)
workshop
pipeline
NGS
4.1 years ago by
David Langenberger
11k
2
votes
2
replies
1.6k
views
EM algorithm in Kallisto
RNA-seq
Kallisto
4.1 years ago by
Mozart
▴ 330
2
votes
2
replies
1.3k
views
Correct way to make multiple comparisons on DESeq2?
expression
differential
DESeq
DESeq2
RNA-seq
4.1 years ago by
jbnrodriguez
▴ 30
1
vote
0
replies
709
views
Where Can we download latest HGNC rdf file
owl
python
rdf
sparql
updated 4.1 years ago by
Michael
56k • written 4.1 years ago by
gopi
▴ 10
0
votes
0
replies
683
views
HOW GISTIC do gene mapping
GISTIC
4.1 years ago by
xingyu
▴ 10
1
vote
1
reply
1.4k
views
EMBOSS transeq lines with "(REVERSE SENSE)" in not reverse sence translations(?)
ORF
transeq
traduction
EMBOSS
updated 4.1 years ago by
Mensur Dlakic
★ 30k • written 4.1 years ago by
Luis999
▴ 20
2
votes
2
replies
1.7k
views
Highly mapped to introns
distribution
read
RSeQC
RNA-seq
exon
intron
updated 4.1 years ago by
rpolicastro
13k • written 4.1 years ago by
Gotumbtai
▴ 10
0
votes
2
replies
1.3k
views
Ways to analyze treatment changes in scRNAseq
cell
scRNAseq
RNA
single
sequencing
updated 4.1 years ago by
Friederike
9.0k • written 4.1 years ago by
ashahban
• 0
122,034 results • Page
578 of 2441
Recent Votes
ProbeID to Gene Symbol Mapping in Microarray data analysis using R
Answer: Unique insertion sites Calculation from Himar1 C9 based TnSeq
Answer: Choosing enrichment analysis tool
Answer: reference-guided assembly tools for short read data?
Answer: BWA-MEM with an array of files
Comment: BWA-MEM with an array of files
Answer: MOuse Testis Enhancer region
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Recent Replies
Comment: Python deconvolution tools for bulk RNA-seq data
by
Arup Ghosh
3.4k
Check the [Bulk2Single][1] option from [OmicVerse][2] framework. [1]: https://omicverse.readthedocs.io/en/latest/Tutorials-bulk2single/…
Comment: reference-guided assembly tools for short read data?
by
michael.ante
★ 4.0k
I don't know how well it works for plants, but I worked with [Saute][1] and it was doing well for reference based assemblies. [1]: http…
Comment: hisat2 error-Paired end reads not equal or lack of RAM/disk space?
by
ATpoint
89k
Most likely a download artifact. First I would re-download and inly if that fails again then do repairing. ftp is primitive, it's just hit …
Answer: Python deconvolution tools for bulk RNA-seq data
by
ATpoint
89k
Imo you are approaching this the wrong way. R packages for deconvolution that are heqavily used and cited do exist, for example MuSiC and B…
Comment: MOuse Testis Enhancer region
by
Bioinformatics_16
• 0
@genomax Do you have access to this list? If so, could you please share it? I need it urgently.
Comment: HDOCK Server Error!
by
Jannatul Ferdous
• 0
Tried that but unfortunately, the problem still persists :( Thanks for your response though!
Answer: Unique insertion sites Calculation from Himar1 C9 based TnSeq
by
LChart
5.1k
While Himar1 inserts in TA motifs, the library is generated following restriction enzyme treatment (Mmrl) and ligation. The Mmrl sequence i…
Comment: Is it possible to do standard GSEA in R?
by
mbramble
• 0
See discussion at https://support.bioconductor.org/p/9142651/#9142680 concerning issues with preranked gsea.
Comment: BWA-MEM with an array of files
by
LChart
5.1k
For solution 1, because bwa streams the data, you can save some space by using a named pipe: ```bash mkfifo Sample_23/concat.R1.fq.gz find…
Comment: reference-guided assembly tools for short read data?
by
Hani
• 0
Either de novo or reference based genome assembly using Illumina PE short reads
Comment: reference-guided assembly tools for short read data?
by
lieven.sterck
16k
which purpose specifically?
Comment: reference-guided assembly tools for short read data?
by
Hani
• 0
In regards to your comment about synteny analysis, I suspected that would be the case. In regards to tools for these purposes, do you perso…
Comment: BWA-MEM with an array of files
by
lieven.sterck
16k
aha, but bwa mem only takes at best 1 pair of fastq files as input, not a whole list. So to achieve this efficiently do what https://www.b…
Answer: reference-guided assembly tools for short read data?
by
lieven.sterck
16k
Not silly at all and done before many times. So yes that is a valid approach. There are certainly a number of tools around that can do this…
Comment: BWA-MEM with an array of files
by
garcesj
▴ 50
None in particular (that's why I didn't indicate it). It just gives back the BWA-MEM help.
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