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1,000 results • Page
5 of 20
Sort: replies
Rank
Views
Votes
Replies
7
votes
20
replies
2.1k
views
Forum:
NGS RNA-Seq Analysis Pipeline Tophat vs STAR
STAR
RNA-Seq
TopHat
updated 11 months ago by
Ram
43k • written 3.3 years ago by
mikefeixu
▴ 10
14
votes
20
replies
6.7k
views
7 follow
Tool Recommendations For Human Genome Assembly
assembly
human-genome
updated 10 months ago by
Ram
43k • written 11.2 years ago by
Chris Cole
▴ 800
7
votes
20
replies
6.4k
views
7 follow
Repeat masked gtf files from ensembl
ensembl
RNA-Seq
genome
updated 20 days ago by
e.r.zakiev
▴ 200 • written 4.3 years ago by
kevin.stachelek
▴ 80
25
votes
19
replies
8.2k
views
10 follow
Tool:
pathfindR - Enrichment Analysis using Active Subnetworks
subnetwork
R
pathway-enrichment
updated 10 months ago by
Ram
43k • written 6.1 years ago by
egeulgen
★ 1.3k
15
votes
19
replies
8.7k
views
6 follow
Tool:
Gemini: Integrative Exploration Of Genetic Variation And Genome Annotations
vcf
database
genome
variation
updated 10 months ago by
Ram
43k • written 11.0 years ago by
Aaronquinlan
12k
75
votes
19
replies
3.5k
views
11 follow
Blog:
A list of technical advantages of Snakemake over Nextflow | Cloud solution for Snakemake
Snakemake
updated 8 weeks ago by
LauferVA
4.2k • written 7 months ago by
Kenny
▴ 30
3
votes
19
replies
1.5k
views
Systematic errors at the end and beginning of reads in NGS panels
NGS
error
panels
sequencing
updated 10 months ago by
Asaf
10k • written 10 months ago by
captainlabman
▴ 20
34
votes
19
replies
47k
views
11 follow
Convert Refseq Id To Gene Name
refseq
gene
updated 9 months ago by
Ram
43k • written 10.9 years ago by
hicsuntdrac0nis
▴ 250
3
votes
19
replies
1.2k
views
extract sequence from genome by region
fasta
updated 4 months ago by
Ram
43k • written 4 months ago by
gernophil
▴ 80
28
votes
19
replies
15k
views
10 follow
How To Generate Mutations In Sequences Of A Fasta File?
fasta
python
mutation
sequence
updated 10 months ago by
Ram
43k • written 12.6 years ago by
Geparada
★ 1.5k
93
votes
19
replies
60k
views
18 follow
What Is A Good Phylogenetic Tree Display Program For Large Data Sets?
phylogenetics-tree
updated 10 months ago by
Ram
43k • written 13.6 years ago by
Niek De Klein
★ 2.6k
66
votes
19
replies
51k
views
17 follow
Tool To Find Out If Fastq Is In Sanger Or Phred64 Encoding?
fastq
updated 10 months ago by
Ram
43k • written 11.2 years ago by
14134125465346445
★ 3.6k
97
votes
19
replies
94k
views
12 follow
How To Get The Sequence Of A Genomic Region From Ucsc?
ucsc
fasta
sequence
updated 6 months ago by
Ram
43k • written 14.2 years ago by
Giovanni M Dall'Olio
28k
12
votes
19
replies
5.6k
views
how to identify CDR region in antibody sequence
CDR
antibody
updated 8 weeks ago by
tiancheng
• 0 • written 22 months ago by
reany
▴ 50
130
votes
19
replies
31k
views
9 follow
Could you explain the difference between STAR, KALLISTO, SALMON etc. to experimental Biologist/non-bioinformatician
RNA-Seq
alignment
next-gen
R
assembly
updated 3 months ago by
Ram
43k • written 4.6 years ago by
WUSCHEL
▴ 750
30
votes
19
replies
10k
views
6 follow
Forum:
Programming language use distribution from recent programs / articles
programming-language
programs
updated 11 months ago by
Ram
43k • written 7.0 years ago by
Eric Normandeau
11k
56
votes
19
replies
4.1k
views
9 follow
Forum:
How to apply for a job
resume
cover-letter
application
CV
updated 11 months ago by
Ram
43k • written 6.8 years ago by
Emily
23k
5
votes
19
replies
4.0k
views
8 follow
Hisat2 aligner problem
RNA-Seq
ChIP-Seq
alignment
Assembly
software error
updated 4 months ago by
ATpoint
82k • written 4.9 years ago by
ta_awwad
▴ 340
23
votes
19
replies
4.3k
views
7 follow
Tool:
Big Browser : a new genom browser in development
genome-browser
updated 10 months ago by
Ram
43k • written 8.1 years ago by
sacha
★ 2.4k
7
votes
19
replies
3.5k
views
CUT&Tag data processing: peak caller choice and typical peak size profile
CUTandTag
MACS2
SEACR
ChIPseq
gopeaks
updated 11 months ago by
gglim
▴ 140 • written 16 months ago by
nihilior
▴ 50
40
votes
19
replies
9.6k
views
12 follow
Is There A Site Where Call For Papers And Conferences Are Listed In One Place?
papers
conference
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Brandstaetter
▴ 270
38
votes
19
replies
11k
views
Tool:
Excel add-in for DNA/RNA string manipulations
sequence
DNA
RNA
Excel
updated 10 months ago by
Ram
43k • written 8.2 years ago by
jgbaum
▴ 140
1
vote
19
replies
893
views
Matching transcriptomic data to clinical data
R
updated 12 weeks ago by
Ram
43k • written 3 months ago by
Khadija
▴ 10
12
votes
19
replies
14k
views
11 follow
SnpMatrix from VCF file
VCF
Eqtl
MatrixEQTL
SnpMatrix
vcftools
updated 6 weeks ago by
pmiller
▴ 10 • written 7.1 years ago by
Dhana
▴ 110
45
votes
19
replies
2.9k
views
9 follow
Forum:
Where and how NGS techniques are heading for the next 5 years?
next-gen
NGS
updated 11 months ago by
Ram
43k • written 6.9 years ago by
lakhujanivijay
5.8k
20
votes
19
replies
4.3k
views
7 follow
Bioinformatics word cloud to use in classes
teaching
education
updated 11 months ago by
Ram
43k • written 5.2 years ago by
gramarga
▴ 50
10
votes
18
replies
1.3k
views
BedGraph file
bam
BigWig
3 months ago by
daffodil
▴ 10
46
votes
18
replies
9.9k
views
8 follow
Tips To Build A Data Storage For Bioinformatics
data
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Jarretinha
3.4k
0
votes
18
replies
1.8k
views
bcl2fastq conversion with specifying exact match of indices
genome
RNA-Seq
sequencing
updated 8 months ago by
GenoMax
141k • written 8 months ago by
Apex92
▴ 280
3
votes
18
replies
4.2k
views
how to identify TATA box in a gene list
TATA
homer
gene
updated 10 months ago by
Ram
43k • written 7.1 years ago by
Lila M
★ 1.2k
9
votes
18
replies
6.3k
views
6 follow
10x 3' library creates R1 and R2 fastq files with the same read length
10x
fastq
scRNA-seq
updated 8 months ago by
573704669
• 0 • written 22 months ago by
tomas4482
▴ 390
21
votes
18
replies
1.7k
views
Forum:
Is it safe to keep our data in github
github
updated 10 months ago by
Ram
43k • written 4.0 years ago by
rprog008
▴ 70
19
votes
18
replies
15k
views
9 follow
vcf to bam
vcf
bam
updated 10 months ago by
berndmann
▴ 10 • written 8.6 years ago by
Madhuri Haque
▴ 20
48
votes
18
replies
32k
views
10 follow
How To Get Promoter Sequences For Human Genes?
promoter
sequence
human
genome
updated 5 months ago by
Ram
43k • written 14.0 years ago by
Yuri
★ 1.7k
26
votes
18
replies
8.5k
views
10 follow
Indexing Compressed Fastq-Like Data
fastq
updated 10 months ago by
Ram
43k • written 13.7 years ago by
2184687-1231-83-
★ 5.1k
8
votes
18
replies
1.2k
views
6 follow
How can I identify single-copy genes in a specific genome?
genome
single-copy
genes
updated 3 months ago by
Dunois
★ 2.5k • written 3 months ago by
Hamtaro
▴ 50
29
votes
18
replies
3.3k
views
7 follow
Forum:
Should I quit PhD program?
education
career
research
phd
updated 11 months ago by
Ram
43k • written 6.0 years ago by
George
▴ 30
68
votes
18
replies
130k
views
14 follow
from .BAM to .BAI using samtools
next-gen-sequencing
samtools
updated 3 months ago by
Pierre Lindenbaum
161k • written 9.6 years ago by
Kizuna
▴ 870
39
votes
18
replies
6.0k
views
10 follow
Any Open Notebook Science In Bioinformatics?
open-notebook
updated 5 months ago by
Ram
43k • written 14.0 years ago by
Heather Piwowar
▴ 380
23
votes
18
replies
1.5k
views
Forum:
Versioning of Blast DB and Reproducible Research
database
blast
reproducible-research
updated 10 months ago by
Ram
43k • written 3.9 years ago by
makrez
▴ 60
23
votes
18
replies
12k
views
7 follow
Fasta header trimming
sequence
updated 8 months ago by
Ankit
• 0 • written 7.2 years ago by
leo1985.arnab
▴ 50
29
votes
18
replies
2.7k
views
12 follow
Forum:
what are the big questions in bioinformatics field nowadays
genome
updated 10 months ago by
Ram
43k • written 4.2 years ago by
t4192
▴ 20
22
votes
18
replies
6.1k
views
about batch correction in scRNA-seq
scRNA
scRNA-seq
batch-effect
updated 13 days ago by
Ram
43k • written 4.6 years ago by
Bogdan
★ 1.4k
30
votes
18
replies
16k
views
8 follow
Is It Possible For Two Different Affymetrix Probe Set Id To Have Common Annotations To Same Gene ?
microarray
annotation
affymetrix
probeset
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Khader Shameer
18k
49
votes
18
replies
15k
views
12 follow
What Phylogeny Viewing Software Do You Use?
software
phylogenetics
visualization
updated 5 months ago by
Ram
43k • written 14.1 years ago by
Roderic Page
▴ 390
14
votes
18
replies
2.3k
views
Clustering in single cell
seurat
single-cell
updated 6 months ago by
e.r.zakiev
▴ 200 • written 7 months ago by
Chris
▴ 260
0
votes
18
replies
1.1k
views
Import list and assign distinct colors in R
R
ggplot2
7 weeks ago by
kmyers2
▴ 80
50
votes
18
replies
36k
views
12 follow
ATAC-seq peak calling with MACS
atac-seq
macs
ChIP-Seq
peaks
updated 10 months ago by
Ram
43k • written 7.7 years ago by
igor
13k
2
votes
18
replies
1.6k
views
error when running phg create-maf-vcf to build a built practical haplotype graph (v2)
pangenome
phg_v2
plants
PHG
29 days ago by
b.contreras.moreira
▴ 180
13
votes
18
replies
3.2k
views
6 follow
Forum:
Bioinformatics independent study group
Proteomic
RNA-Seq
Genomic
updated 11 months ago by
Ram
43k • written 6.7 years ago by
Leite
★ 1.3k
1,000 results • Page
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Answer: Basic stats in hierfstat
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Hi Zoe, did you find an answer for this? I am also getting the same error.
Comment: GATK won't produce figures while analyzing covariates to generate 'recal_plots.p
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141k
Your cluster may be missing libraries etc to create the PDF plots (this looks like a cluster job submission) on your cluster. Did you check…
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Ok yes I think my thought was that given these errors, I could remove the mismatches and flip the alleles which seem to need flipping based…
Comment: Bacterial plasmid analysis
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I think I will perhaps use their predominant PlasmidFinder type to group plasmids together and create separate core phylogenies for each as…
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141k
Can you classify the plasmids based on function (resistance genes they are carrying or some other criteria). Sizes above are indicating a w…
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Initially posted here https://support.bioconductor.org/p/9158036/ where I suggested to put code and data and noted that GEOquery returns ar…
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I agree that some need to be flipped (A/T and C/G where your panel frequency is 1 - ref panel frequency). There are other variants which yo…
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Are those 20% unaligned reads coming after hyper-editing detection?
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I think your best bet would be to use annotation mapping. You can use the features of your clusters in group 1 and apply them to group 2 to…
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> when I put in the dataset, I am not able to run it for DEG analysis because system asks me to remove the first column which is of gene na…
Comment: Bacterial plasmid analysis
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• 0
Thank you so much for your quick response, I have been searching scientific papers for about a week but have failed to come up with a reaso…
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141k
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I'm sure someone could find a more elegant solution using `stringr::str_wrap`, but for a one-time solution I did this: # my results of…
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You could edit the SAM file but I wonder if this problem is present in your original fastq data file so if not inconvenient do the alignmen…
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