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Showing :
questions
8
votes
12
replies
3.0k
views
Additional sequences in adapter file cause trimming problem?
adapter
trimming
trimmomatic
bbtools
6.7 years ago by
Anand Rao
▴ 630
6
votes
1
reply
3.3k
views
Running ABySS at k-mer > 97
genome assembly
ABySS
k-mer
updated 6.7 years ago by
benv
▴ 730 • written 6.7 years ago by
Anand Rao
▴ 630
1
vote
5
replies
2.2k
views
ALLPATHS-LG error correction step problem
ALLPATHS-LG
error correction
ErrorCorrectReads.pl
6.7 years ago by
Anand Rao
▴ 630
6
votes
8
replies
4.2k
views
error correction using BBTools
error correction
k-mer
BBTools
bbnorm
khist
updated 6.7 years ago by
Brian Bushnell
20k • written 6.7 years ago by
Anand Rao
▴ 630
20
votes
17
replies
6.0k
views
HiSeq 4000 PhiX screening and removal using bbduk
spikein
filtering
bbmap
bbduk
phix
6.7 years ago by
Anand Rao
▴ 630
4
votes
6
replies
3.0k
views
ABySS run problems
ABySS
genome assembly
de novo
MPI
updated 6.7 years ago by
benv
▴ 730 • written 6.7 years ago by
Anand Rao
▴ 630
0
votes
1
reply
2.3k
views
k-mer overrepresentation of WGS Illumina reads
Adapter
Trimming
k-mer
Trimmomatic
FastQC
6.7 years ago by
Anand Rao
▴ 630
8
votes
3
replies
3.7k
views
Genome size estimation discrepancy : Jellyfish k-mer Vs. estimate_genome_size.pl
k-mer
jellyfish
genome size
updated 6.8 years ago by
Brian Bushnell
20k • written 6.8 years ago by
Anand Rao
▴ 630
5
votes
4
replies
5.0k
views
Interpreting pre- and post-trim_galore FastQC results
fastqc
illumina
adapter
trimming
updated 6.8 years ago by
GenoMax
141k • written 6.8 years ago by
Anand Rao
▴ 630
3
votes
1
reply
3.2k
views
RNAmmer returns 8s_rRNA, which is what?
RNAmmer
rRNA
gene prediction
gene annotation
updated 6.9 years ago by
h.mon
35k • written 6.9 years ago by
Anand Rao
▴ 630
0
votes
3
replies
1.5k
views
Maintaining gene ID correspondence across strains
Gene prediction
Gene annotation
Gene ID
updated 6.9 years ago by
Jean-Karim Heriche
27k • written 6.9 years ago by
Anand Rao
▴ 630
0
votes
1
reply
1.2k
views
Scaffolder with better performance specs
scaffolding
genome assembly
assembly improvement
7.1 years ago by
Anand Rao
▴ 630
0
votes
2
replies
2.4k
views
structural variants in de novo genome assemblies
sv
cnv
de novo assembly
updated 7.7 years ago by
WouterDeCoster
47k • written 7.7 years ago by
Anand Rao
▴ 630
2
votes
4
replies
4.2k
views
Combining HMMs and fasta for HMMER searches
HMMER
fasta
hmm
updated 7.7 years ago by
Jean-Karim Heriche
27k • written 7.7 years ago by
Anand Rao
▴ 630
0
votes
3
replies
1.5k
views
probability of 2 sequences with defined distance in fully sequenced genomes
DNA sequence
probability
E-value
p-value
updated 7.8 years ago by
Vince FitzPatrick
▴ 10 • written 7.8 years ago by
Anand Rao
▴ 630
2
votes
2
replies
3.8k
views
tools for Reciprocal BLAST hit processing
reciprocal BLAST
script
filter
8.0 years ago by
Anand Rao
▴ 630
7
votes
3
replies
3.1k
views
Map PDB match coords to Pfam protein domain
protein
PDB
mapping
domain
updated 3.1 years ago by
Ram
43k • written 8.4 years ago by
Anand Rao
▴ 630
0
votes
1
reply
2.2k
views
Feeding FASTA-ggsearch36 results for MCL clustering
FASTA
global
local
cluster
8.3 years ago by
Anand Rao
▴ 630
0
votes
1
reply
1.8k
views
BLASTp all-by-all run parameters & post-processing tools
BLAST
coverage
length
clustering
homology
8.3 years ago by
Anand Rao
▴ 630
0
votes
3
replies
2.1k
views
Ideal sequence % identity for profile construction
hmmbuild
sequence-identity
profile-HMM
HMMER3
updated 21 months ago by
Ram
43k • written 8.4 years ago by
Anand Rao
▴ 630
7
votes
6
replies
8.8k
views
Determining best MCL inflation factor
Inflation
MarkovChain
clustering
MCL
updated 21 months ago by
Ram
43k • written 8.4 years ago by
Anand Rao
▴ 630
0
votes
1
reply
2.0k
views
Ortholog in superfamily with promiscuous domain
length-variation
ortholog
updated 21 months ago by
Ram
43k • written 8.4 years ago by
Anand Rao
▴ 630
4
votes
3
replies
2.0k
views
Parse GFF to infer numbers of all exons, and just coding exons per gene
coding
GFF
exon
updated 20 months ago by
Ram
43k • written 8.5 years ago by
Anand Rao
▴ 630
2
votes
2
replies
3.7k
views
Database for plant ploidy
ploidy
database
public
updated 8.5 years ago by
Renesh
★ 2.2k • written 8.5 years ago by
Anand Rao
▴ 630
1
vote
1
reply
1.4k
views
Simulating early phase fragmented genome assembly
fragmentation
genome-simulation
updated 19 months ago by
Ram
43k • written 8.6 years ago by
Anand Rao
▴ 630
0
votes
0
replies
1.5k
views
Processing SDI data from Arabidopsis 1001 genomes for inferring population structure
population-structure
SNP
updated 18 months ago by
Ram
43k • written 8.7 years ago by
Anand Rao
▴ 630
4
votes
3
replies
1.8k
views
Distance metrics of loci of 2 types in 2 GFFs (bedtools?)
bedtools
GFF
updated 16 months ago by
Ram
43k • written 8.9 years ago by
Anand Rao
▴ 630
2
votes
1
reply
2.9k
views
Accelerating BLAST for million sequence BLASTp all-by-all
BLAST
parallel
mpi
cpu
updated 2.1 years ago by
Ram
43k • written 9.3 years ago by
Anand Rao
▴ 630
2
votes
2
replies
2.7k
views
Running High-Throughput Searches Using Wise2 Software
hmm
genome
updated 12.7 years ago by
DG
7.3k • written 12.7 years ago by
Anand Rao
▴ 630
79 results • Page
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