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Recent Replies
Comment: Haploview and plink
by
Kevin Blighe
77k
The PED file is invalid. The first 6 columns should be:
Family ID
Individual ID
Paternal ID
Maternal ID
Sex (1=male; 2…
Comment: Error: mdb_env_open: Bad file descriptor
by
lieven.sterck
12k
yes , absolutely. Just add the correct paths to either of them then (or add them to your $PATH env variable)
Comment: Error: mdb_env_open: Bad file descriptor
by
lieven.sterck
12k
sounds like you don't have write permissions in that specific folder? or there is no space left ?
Comment: Haploview and plink
by
Nai
•
0
Hi,
To generate .ped and .map
vcftools --vcf all_sample_no_indel.recode.vcf --plink --out all
To convert .ped as input of haploview
…
Comment: Error: mdb_env_open: Bad file descriptor
by
vasudha
•
0
Can ncbi blast+ and the database be at different paths?
Comment: The BLAST command stops with an error.
by
Michael Dondrup
49k
To find out how much memory you have:
cat /proc/meminfo | head
And then get the blastx version:
blastx -version
And c…
Comment: IMPUTE2 -merge_ref_panels
by
Kevin Blighe
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You should not have any file called REF. That parameter defines the name prefix of the merged panel output files. Please see: https://mathg…
Comment: Which trajectory method is better !?
by
ahmad mousavi
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Thanks jared for your answer. I am working in EMT process, the difficultly is I have 2-3 epithelial clusters. I know they are expressing th…
Comment: The BLAST command stops with an error.
by
lieven.sterck
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How much memory did you assign to this job? Newest blast version are quite memory-hungry so it is not unlikely it just ran out of memory.
…
Comment: gff file
by
manaswwm
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I think it would be better if you post a sample of the gff file and what you want to extract from it
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ATpoint
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This is super open-ended and therefore cannot be answered. In general OMICS datasets can only be compared when processed identically in wet…
Comment: IMPUTE2 -merge_ref_panels
by
raalsuwaidi
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I mean the output from the below statement
-merge_ref_panels_output_ref REF \
Comment: Error: mdb_env_open: Bad file descriptor
by
vasudha
•
0
yaah..i meant this format only... just a typo..
and when I use :
``
bin/update_blastdb.pl --passive --decompress nt
``
I get
``
Connect…
Comment: Whole genome coverage plot
by
gb
★
2.0k
Are you sure you mean repeat sequences? Do you not mean duplicate sequences?
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