NIH GCG-FAQ
TABLE of CONTENTS
Introduction | Connecting | Graphics | Printing | GCG Programs | Assistance
Searches can be single words - phrases,placed within quotes(") - or multiple words separated by boolean operators (and/or/not)
Introduction
- What do I need to use GCG at NIH?
- How do I use GCG from a Mac?
- How do I use GCG from a PC?
- How do I use GCG from a Unix machine?
- Cursor (arrow) keys don't work (in Seqed / Geledit).
- Delete and backspace keys don't work in Seqed.
- What X-terminal emulators can I use on a Mac or PC?
- How do I get GCG graphics on my Mac?
- How do I get GCG graphics on my PC (clone)?
- How do I get GCG graphics on my Unix workstation?
- How do I get graphics on my Windows NT machine?
- What if my connection software can't do graphics?
- How can I modify a GCG graphics figure for publication?
- How do I know if my setup can display GCG graphics?
- What do I do with a figure file?
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
- How do I print to my local (non-networked) printer?
- How can I print to my network printer?
- Can I print from helix to an AppleTalk printer?
- Can I print from helix to a printer that is attached directly to my PC/Mac ?
- My printer's currently dead; where can I print?
- How do I print GCG graphics to my postscript printer?
- How do I print GCG graphics to my HP plotter or printer?
- What if my printer can't do postscript?
- My printer prints black-and-white but I need color prints.
- How do I know what port my LaserWriter is connected to?
- GCG doesn't accept my sequence data format.
- How do I save scores from Pileup runs ?
- How do I save the genetic distance scale from Growtree ?
- I keep getting files called seqed.log in my directory.
- Seqed says 'recovering...' for ever!
- What databases are available for Fasta searches?
- How do I get information about the databases?
- Motifs doesn't find a known motif in my protein.
- What databases are available for Blast searches?
- Fasta says "No sequences to compare to query sequence!"
- Reformat gave me an empty file.
- Reformat put the header into the sequence.
- Where do I get the codon usage table for xxx?
- What options are available with each program?
- How do I edit more than 30 aligned sequences?
- Why can't I find a published sequence?
- How do I get my sequences into Pileup?
- Should I use Blast or Fasta?
- Can I use Fasta with a short sequence?
- Should I use framesearch or Blastx?
- After a Pileup run, how do I calculate a consensus sequence?
- How can I put a Pretty consensus output into other GCG programs?
- Can I change how matches are displayed in Pretty?
- How do I import a sequence file into GCG?
- Reformat cut off the end of my sequence.
- How do I translate the coding regions of a Genbank entry?
- How do I stop Fasta?
- When should I use stringsearch?
- How can I get a tfasta output aligned with Pileup?
- How do I design a primer?
- How do I convert peptide sequences from 1-letter to 3-letter amino acid codes? -
- Blast error: Server did not say ok
- Why have my alignments changed in Version 9?
- Pileup doesn't find conserved motifs in my alignment in Version 9
- How do I run blast searches in batch mode?
- How do I view the trees from Paupsearch?
- How do I search a complete genome?
- How do I kill a paupsearch run?
- How can I find all relevant sequences with Lookup?
- How can I find bases 3134678 to 3136537 of the E. Coli genome?
- How can I search for promoter regions?
- What is a FAQ?
- What is GCG?
- What is helix?
- What is GCG-Lite?
- How do I edit my files on helix?
- What shell should I use on helix?
- I don't know any Unix!
- How do I cite the GCG package?
- (VAX) VMS to Unix issues
Connecting
- What do I need to use GCG at NIH?
- How do I use GCG from a Mac?
- How do I use GCG from a PC?
- How do I use GCG from a Unix machine?
- Cursor (arrow) keys don't work (in Seqed / Geledit).
- Delete and backspace keys don't work in Seqed.
- What X-terminal emulators can I use on a Mac or PC?
- How do I get GCG graphics on my Mac?
- How do I get GCG graphics on my PC (clone)?
- How do I get GCG graphics on my Unix workstation?
- How do I get graphics on my Windows NT machine?
- What if my connection software can't do graphics?
- How can I modify a GCG graphics figure for publication?
- How do I know if my setup can display GCG graphics?
- What do I do with a figure file?
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
- How do I print to my local (non-networked) printer?
- How can I print to my network printer?
- Can I print from helix to an AppleTalk printer?
- Can I print from helix to a printer that is attached directly to my PC/Mac ?
- My printer's currently dead; where can I print?
- How do I print GCG graphics to my postscript printer?
- How do I print GCG graphics to my HP plotter or printer?
- What if my printer can't do postscript?
- My printer prints black-and-white but I need color prints.
- How do I know what port my LaserWriter is connected to?
- GCG doesn't accept my sequence data format.
- How do I save scores from Pileup runs ?
- How do I save the genetic distance scale from Growtree ?
- I keep getting files called seqed.log in my directory.
- Seqed says 'recovering...' for ever!
- What databases are available for Fasta searches?
- How do I get information about the databases?
- Motifs doesn't find a known motif in my protein.
- What databases are available for Blast searches?
- Fasta says "No sequences to compare to query sequence!"
- Reformat gave me an empty file.
- Reformat put the header into the sequence.
- Where do I get the codon usage table for xxx?
- What options are available with each program?
- How do I edit more than 30 aligned sequences?
- Why can't I find a published sequence?
- How do I get my sequences into Pileup?
- Should I use Blast or Fasta?
- Can I use Fasta with a short sequence?
- Should I use framesearch or Blastx?
- After a Pileup run, how do I calculate a consensus sequence?
- How can I put a Pretty consensus output into other GCG programs?
- Can I change how matches are displayed in Pretty?
- How do I import a sequence file into GCG?
- Reformat cut off the end of my sequence.
- How do I translate the coding regions of a Genbank entry?
- How do I stop Fasta?
- When should I use stringsearch?
- How can I get a tfasta output aligned with Pileup?
- How do I design a primer?
- How do I convert peptide sequences from 1-letter to 3-letter amino acid codes? -
- Blast error: Server did not say ok
- Why have my alignments changed in Version 9?
- Pileup doesn't find conserved motifs in my alignment in Version 9
- How do I run blast searches in batch mode?
- How do I view the trees from Paupsearch?
- How do I search a complete genome?
- How do I kill a paupsearch run?
- How can I find all relevant sequences with Lookup?
- How can I find bases 3134678 to 3136537 of the E. Coli genome?
- How can I search for promoter regions?
Graphics
- How do I get GCG graphics on my Mac?
- How do I get GCG graphics on my PC (clone)?
- How do I get GCG graphics on my Unix workstation?
- How do I get graphics on my Windows NT machine?
- What if my connection software can't do graphics?
- How can I modify a GCG graphics figure for publication?
- How do I know if my setup can display GCG graphics?
- What do I do with a figure file?
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
- How do I print to my local (non-networked) printer?
- How can I print to my network printer?
- Can I print from helix to an AppleTalk printer?
- Can I print from helix to a printer that is attached directly to my PC/Mac ?
- My printer's currently dead; where can I print?
- How do I print GCG graphics to my postscript printer?
- How do I print GCG graphics to my HP plotter or printer?
- What if my printer can't do postscript?
- My printer prints black-and-white but I need color prints.
- How do I know what port my LaserWriter is connected to?
- GCG doesn't accept my sequence data format.
- How do I save scores from Pileup runs ?
- How do I save the genetic distance scale from Growtree ?
- I keep getting files called seqed.log in my directory.
- Seqed says 'recovering...' for ever!
- What databases are available for Fasta searches?
- How do I get information about the databases?
- Motifs doesn't find a known motif in my protein.
- What databases are available for Blast searches?
- Fasta says "No sequences to compare to query sequence!"
- Reformat gave me an empty file.
- Reformat put the header into the sequence.
- Where do I get the codon usage table for xxx?
- What options are available with each program?
- How do I edit more than 30 aligned sequences?
- Why can't I find a published sequence?
- How do I get my sequences into Pileup?
- Should I use Blast or Fasta?
- Can I use Fasta with a short sequence?
- Should I use framesearch or Blastx?
- After a Pileup run, how do I calculate a consensus sequence?
- How can I put a Pretty consensus output into other GCG programs?
- Can I change how matches are displayed in Pretty?
- How do I import a sequence file into GCG?
- Reformat cut off the end of my sequence.
- How do I translate the coding regions of a Genbank entry?
- How do I stop Fasta?
- When should I use stringsearch?
- How can I get a tfasta output aligned with Pileup?
- How do I design a primer?
- How do I convert peptide sequences from 1-letter to 3-letter amino acid codes? -
- Blast error: Server did not say ok
- Why have my alignments changed in Version 9?
- Pileup doesn't find conserved motifs in my alignment in Version 9
- How do I run blast searches in batch mode?
- How do I view the trees from Paupsearch?
- How do I search a complete genome?
- How do I kill a paupsearch run?
- How can I find all relevant sequences with Lookup?
- How can I find bases 3134678 to 3136537 of the E. Coli genome?
- How can I search for promoter regions?
Printing
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
- How do I print to my local (non-networked) printer?
- How can I print to my network printer?
- Can I print from helix to an AppleTalk printer?
- Can I print from helix to a printer that is attached directly to my PC/Mac ?
- My printer's currently dead; where can I print?
- How do I print GCG graphics to my postscript printer?
- How do I print GCG graphics to my HP plotter or printer?
- What if my printer can't do postscript?
- My printer prints black-and-white but I need color prints.
- How do I know what port my LaserWriter is connected to?
- GCG doesn't accept my sequence data format.
- How do I save scores from Pileup runs ?
- How do I save the genetic distance scale from Growtree ?
- I keep getting files called seqed.log in my directory.
- Seqed says 'recovering...' for ever!
- What databases are available for Fasta searches?
- How do I get information about the databases?
- Motifs doesn't find a known motif in my protein.
- What databases are available for Blast searches?
- Fasta says "No sequences to compare to query sequence!"
- Reformat gave me an empty file.
- Reformat put the header into the sequence.
- Where do I get the codon usage table for xxx?
- What options are available with each program?
- How do I edit more than 30 aligned sequences?
- Why can't I find a published sequence?
- How do I get my sequences into Pileup?
- Should I use Blast or Fasta?
- Can I use Fasta with a short sequence?
- Should I use framesearch or Blastx?
- After a Pileup run, how do I calculate a consensus sequence?
- How can I put a Pretty consensus output into other GCG programs?
- Can I change how matches are displayed in Pretty?
- How do I import a sequence file into GCG?
- Reformat cut off the end of my sequence.
- How do I translate the coding regions of a Genbank entry?
- How do I stop Fasta?
- When should I use stringsearch?
- How can I get a tfasta output aligned with Pileup?
- How do I design a primer?
- How do I convert peptide sequences from 1-letter to 3-letter amino acid codes? -
- Blast error: Server did not say ok
- Why have my alignments changed in Version 9?
- Pileup doesn't find conserved motifs in my alignment in Version 9
- How do I run blast searches in batch mode?
- How do I view the trees from Paupsearch?
- How do I search a complete genome?
- How do I kill a paupsearch run?
- How can I find all relevant sequences with Lookup?
- How can I find bases 3134678 to 3136537 of the E. Coli genome?
- How can I search for promoter regions?
GCG Programs
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
- GCG doesn't accept my sequence data format.
- How do I save scores from Pileup runs ?
- How do I save the genetic distance scale from Growtree ?
- I keep getting files called seqed.log in my directory.
- Seqed says 'recovering...' for ever!
- What databases are available for Fasta searches?
- How do I get information about the databases?
- Motifs doesn't find a known motif in my protein.
- What databases are available for Blast searches?
- Fasta says "No sequences to compare to query sequence!"
- Reformat gave me an empty file.
- Reformat put the header into the sequence.
- Where do I get the codon usage table for xxx?
- What options are available with each program?
- How do I edit more than 30 aligned sequences?
- Why can't I find a published sequence?
- How do I get my sequences into Pileup?
- Should I use Blast or Fasta?
- Can I use Fasta with a short sequence?
- Should I use framesearch or Blastx?
- After a Pileup run, how do I calculate a consensus sequence?
- How can I put a Pretty consensus output into other GCG programs?
- Can I change how matches are displayed in Pretty?
- How do I import a sequence file into GCG?
- Reformat cut off the end of my sequence.
- How do I translate the coding regions of a Genbank entry?
- How do I stop Fasta?
- When should I use stringsearch?
- How can I get a tfasta output aligned with Pileup?
- How do I design a primer?
- How do I convert peptide sequences from 1-letter to 3-letter amino acid codes? -
- Blast error: Server did not say ok
- Why have my alignments changed in Version 9?
- Pileup doesn't find conserved motifs in my alignment in Version 9
- How do I run blast searches in batch mode?
- How do I view the trees from Paupsearch?
- How do I search a complete genome?
- How do I kill a paupsearch run?
- How can I find all relevant sequences with Lookup?
- How can I find bases 3134678 to 3136537 of the E. Coli genome?
- How can I search for promoter regions?
Assistance
- How can I learn to use GCG?
- Where do I get GCG manuals?
- I have a GCG question; who do I ask?
- What GCG program should I use for?
- What other online help or GCG FAQs are out there?
Comments and suggestions about this FAQ should be mailed to:
susanc@helix.nih.gov (Susan Chacko)
Last Updated: March 27, 2002