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questions
0
votes
3
replies
412
views
How to identify gaps in a genome?
awk
seqkit
assembly
fasta
genome
updated 11 days ago by
colindaven
6.4k • written 19 days ago by
rj.rezwan
• 0
3
votes
1
reply
278
views
how to change the gene header names in a fasta file?
fasta
bioawk
awk
seqkit
updated 22 days ago by
Ram
43k • written 22 days ago by
rj.rezwan
• 0
0
votes
4
replies
294
views
kmer analysis for genome size estimation
kmer
merqury
allotetraploid
pacbio
hifiasm
29 days ago by
rj.rezwan
• 0
0
votes
6
replies
431
views
why the file is low after combining the Hi-C reads using Arima genomics pipeline of mapping
bwa
mapping
genome
samtools
plants
8 weeks ago by
rj.rezwan
• 0
0
votes
0
replies
134
views
issue with the Arima genomics pipeline for Hi-C scaffolding
plant
pacbio
assembly
genome
Hi-C
8 weeks ago by
rj.rezwan
• 0
1
vote
1
reply
233
views
Is there any database for transposable elements in cactus plants
EDTA
transposable-elements
updated 9 weeks ago by
Ram
43k • written 9 weeks ago by
rj.rezwan
• 0
0
votes
4
replies
522
views
allele matching between identical genotypes
haplotyping
plink
vcf
GATK
varaint
12 weeks ago by
rj.rezwan
• 0
0
votes
1
reply
363
views
how to run the compare_genomes for comparative analysis
genome
orthofinder
evolution
updated 4 months ago by
dthorbur
★ 1.9k • written 4 months ago by
rj.rezwan
• 0
1
vote
10
replies
1.0k
views
file conversion from gtf to gff3 for evidence modeler
gff3
stringtie
gtf
6 months ago by
rj.rezwan
• 0
2
votes
3
replies
727
views
samtools produces truncated error during merging the bam files
bam
samtools
HISAT
updated 6 months ago by
Ram
43k • written 7 months ago by
rj.rezwan
• 0
0
votes
3
replies
853
views
investigate the inversions in comparison of assembled genome with reference genome
genome
assembly
scaffold
ragtag
dotplot
updated 8 months ago by
samuel.a.odonnell
▴ 520 • written 8 months ago by
rj.rezwan
• 0
2
votes
3
replies
934
views
How to find the coverage of the assembled contigs of the PacBio long reads?
PacBio
assembly
coverage
updated 8 months ago by
liorglic
★ 1.4k • written 9 months ago by
rj.rezwan
• 0
1
vote
2
replies
699
views
How to make the SNP density plot using hapmap file
vcf
haplotype
hapmap
CMplot
9 months ago by
rj.rezwan
• 0
0
votes
0
replies
336
views
How to perform a phylogenetic analysis from a vcf file
variants
haplotyping
phylogeny
vcf
11 months ago by
rj.rezwan
• 0
4
votes
2
replies
914
views
How to calculate kinship matrix table from vcf file
variants
haplotyping
kinship
heatmap
updated 11 months ago by
chrchang523
10k • written 11 months ago by
rj.rezwan
• 0
0
votes
0
replies
294
views
how to retrieve the chunk of every chromosome from a vcf file
haplotyping
varaints
12 months ago by
rj.rezwan
• 0
2
votes
6
replies
665
views
how to make a header name in a haplotyping script of gatk?
headername
gatk
haplotypecalling
12 months ago by
rj.rezwan
• 0
2
votes
7
replies
1.0k
views
why CombineGCVFs in gatk not showing all the samples name?
haplotypecalling
CombineGVCFs
GATK
updated 12 months ago by
Ram
43k • written 12 months ago by
rj.rezwan
• 0
6
votes
5
replies
1.0k
views
error with CombineGVCFs to join large number of files
haplotypecalling
CombineGVCFs
GATK
13 months ago by
rj.rezwan
• 0
1
vote
1
reply
422
views
Why GATK is slow with haplotypecalling
GATK
HaplotypeCalling
updated 13 months ago by
Pierre Lindenbaum
161k • written 13 months ago by
rj.rezwan
• 0
0
votes
4
replies
1.4k
views
GATK error of Argument --emit-ref-confidence
argument
GATK
HaplotypeCaller
14 months ago by
rj.rezwan
• 0
0
votes
5
replies
1.6k
views
GATK showing error of reference file index
GATK
HaplotypeCaller
updated 14 months ago by
Ram
43k • written 14 months ago by
rj.rezwan
• 0
2
votes
2
replies
582
views
does warning has an impact on the markduplication output file?
markduplication
picard
warning
updated 14 months ago by
Pierre Lindenbaum
161k • written 14 months ago by
rj.rezwan
• 0
1
vote
1
reply
502
views
Improve the bash code for picard analysis
bash
picard
slurm
updated 15 months ago by
Pierre Lindenbaum
161k • written 15 months ago by
rj.rezwan
• 0
0
votes
3
replies
758
views
best way to learn bash scripting
bash
coding
sequncing
updated 3 months ago by
Jeremy
▴ 910 • written 15 months ago by
rj.rezwan
• 0
1
vote
1
reply
569
views
is it mandatory to use fixmate?
picard
genome
mapping
fixmate
updated 16 months ago by
barslmn
★ 2.1k • written 16 months ago by
rj.rezwan
• 0
1
vote
2
replies
989
views
Markduplicate error in picard
picard
maarkduplicate
genome
mapping
16 months ago by
rj.rezwan
• 0
1
vote
1
reply
583
views
why sorted.bam file size is increased after using fixmate in picard
picard
genome
fixmate
updated 16 months ago by
Pierre Lindenbaum
161k • written 16 months ago by
rj.rezwan
• 0
1
vote
1
reply
515
views
How to cross-check the mapping % quality of reads
BWA
genome
mapping
bamtools
updated 16 months ago by
GenoMax
142k • written 16 months ago by
rj.rezwan
• 0
3
votes
5
replies
1.3k
views
multiple alignment of genomes via LASTZ
fasta
alignment
lastz
updated 16 months ago by
Ram
43k • written 16 months ago by
rj.rezwan
• 0
1
vote
4
replies
1.0k
views
How to select the right reference genome
genome
reads
mapping
diploid
19 months ago by
rj.rezwan
• 0
0
votes
9
replies
1.9k
views
Apple gene ID conversion tool
apple gene ID conversion
updated 2.4 years ago by
GenoMax
142k • written 4.4 years ago by
rj.rezwan
• 0
1
vote
2
replies
1.0k
views
How to extract particular gene sequence from a file using gene IDs in LINUX
gene sequence
linux command
updated 3.7 years ago by
GenoMax
142k • written 3.7 years ago by
rj.rezwan
• 0
0
votes
8
replies
2.1k
views
Facing trouble to analyze the different Rice genes on David Bioinformatics Resources 6.8
RNA-Seq
David 6.8
6.0 years ago by
rj.rezwan
• 0
10
votes
7
replies
9.4k
views
6 follow
How to find out the insert size in RNA seq data
RNA-Seq
updated 6.1 years ago by
Michi
▴ 990 • written 6.7 years ago by
rj.rezwan
• 0
1
vote
4
replies
2.3k
views
Submission of RNA-seq data in NCBI Sequence Read Archive (SRA)
NCBI SRA
6.3 years ago by
rj.rezwan
• 0
5
votes
12
replies
6.0k
views
6 follow
Gene ontology and KEGG pathway analysis of rice RNA-seq data
RNA-Seq
updated 6.4 years ago by
EagleEye
7.5k • written 6.5 years ago by
rj.rezwan
• 0
37 results • Page
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